Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chrUn_random
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 10571689
ACGTcount: A:0.28, C:0.14, G:0.14, T:0.28
Warning! 1662808 characters in sequence are not A, C, G, or T
File 14 of 30
Found at i:4760685 original size:2 final size:2
Alignment explanation
Indices: 4760678--4760706 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4760668 GGTTGTGATA
4760678 AT AT AT AT AT AT AT AT AT A- AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4760707 GTGAAATGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4762722 original size:2 final size:2
Alignment explanation
Indices: 4762715--4762744 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
4762705 AGATACATAC
4762715 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4762745 CCAAATTCCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4770017 original size:28 final size:29
Alignment explanation
Indices: 4769959--4770019 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
4769949 GTAAATTTTT
** *
4769959 AAAAATTACACTTTTGCCCTCGTAAAGTG
1 AAAAATTACACTTTTGCCCTCAAAAACTG
*
4769988 AAAAATTACATTTTTGCCCT-AAAAACTG
1 AAAAATTACACTTTTGCCCTCAAAAACTG
4770016 AAAA
1 AAAA
4770020 TTGCCCATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 9 0.32
29 19 0.68
ACGTcount: A:0.43, C:0.18, G:0.10, T:0.30
Consensus pattern (29 bp):
AAAAATTACACTTTTGCCCTCAAAAACTG
Found at i:4772448 original size:16 final size:16
Alignment explanation
Indices: 4772427--4772459 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4772417 CTCAAACATC
*
4772427 TTTCTCAGTTTGATAA
1 TTTCTCACTTTGATAA
4772443 TTTCTCACTTTGATAA
1 TTTCTCACTTTGATAA
4772459 T
1 T
4772460 CCCTAACCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.24, C:0.15, G:0.09, T:0.52
Consensus pattern (16 bp):
TTTCTCACTTTGATAA
Found at i:4773480 original size:22 final size:22
Alignment explanation
Indices: 4773441--4773489 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
4773431 TTTTACATAA
* *
4773441 ATATA-ATATATGTTTATTTAT
1 ATATATATATATATGTATTTAT
4773462 ATATATATATATATGTATTTAT
1 ATATATATATATATGTATTTAT
*
4773484 AAATAT
1 ATATAT
4773490 TACTAAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 5 0.21
22 19 0.79
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (22 bp):
ATATATATATATATGTATTTAT
Found at i:4775616 original size:53 final size:53
Alignment explanation
Indices: 4775559--4775681 Score: 156
Period size: 53 Copynumber: 2.3 Consensus size: 53
4775549 AAAGCGATAT
* *
4775559 TCTCACACAATCCACAAAATAATTCATACTTTTTAACGAGATCAAGCAATAAC
1 TCTCACACAATTCACAAAAGAATTCATACTTTTTAACGAGATCAAGCAATAAC
* * * * * *
4775612 TCTCACACAATTCACAAAAGGATTCTTGCTTTTTAGCGAGATTAAGCGATAAC
1 TCTCACACAATTCACAAAAGAATTCATACTTTTTAACGAGATCAAGCAATAAC
* *
4775665 CCTTACACAATTCACAA
1 TCTCACACAATTCACAA
4775682 TTAAACTAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
53 60 1.00
ACGTcount: A:0.39, C:0.24, G:0.09, T:0.28
Consensus pattern (53 bp):
TCTCACACAATTCACAAAAGAATTCATACTTTTTAACGAGATCAAGCAATAAC
Found at i:4776852 original size:18 final size:18
Alignment explanation
Indices: 4776829--4776863 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
4776819 GGTTTGGATT
4776829 TGGAAAAAAGAAAAAATA
1 TGGAAAAAAGAAAAAATA
4776847 TGGAAAAAAGAAAAAAT
1 TGGAAAAAAGAAAAAAT
4776864 CTAGAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.17, T:0.11
Consensus pattern (18 bp):
TGGAAAAAAGAAAAAATA
Found at i:4776871 original size:17 final size:18
Alignment explanation
Indices: 4776831--4776871 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
4776821 TTTGGATTTG
*
4776831 GAAAAAAGAAAAAATATG
1 GAAAAAAGAAAAAATATA
*
4776849 GAAAAAAGAAAAAATCTA
1 GAAAAAAGAAAAAATATA
4776867 GAAAA
1 GAAAA
4776872 TTAAGAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.73, C:0.02, G:0.15, T:0.10
Consensus pattern (18 bp):
GAAAAAAGAAAAAATATA
Found at i:4783608 original size:25 final size:24
Alignment explanation
Indices: 4783579--4783668 Score: 64
Period size: 22 Copynumber: 3.9 Consensus size: 24
4783569 ATATAATCAA
4783579 AAATATAATATATATTTATTTACAT
1 AAATATAATAT-TATTTATTTACAT
** *
4783604 AAATAT-ATATT-TTTACATAAAT
1 AAATATAATATTATTTATTTACAT
** * *
4783626 -AATCCAA-GTCATTT-TTTACAT
1 AAATATAATATTATTTATTTACAT
4783647 AAATATAATATATATTTATTTA
1 AAATATAATAT-TATTTATTTA
4783669 TATATATTTG
Statistics
Matches: 45, Mismatches: 14, Indels: 12
0.63 0.20 0.17
Matches are distributed among these distances:
21 8 0.18
22 17 0.38
23 2 0.04
24 8 0.18
25 10 0.22
ACGTcount: A:0.46, C:0.07, G:0.01, T:0.47
Consensus pattern (24 bp):
AAATATAATATTATTTATTTACAT
Found at i:4783611 original size:18 final size:18
Alignment explanation
Indices: 4783585--4783626 Score: 66
Period size: 18 Copynumber: 2.2 Consensus size: 18
4783575 TCAAAAATAT
4783585 AATATATATTTATTTACATA
1 AATATATA-TT-TTTACATA
4783605 AATATATATTTTTACATA
1 AATATATATTTTTACATA
4783623 AATA
1 AATA
4783627 ATCCAAGTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 12 0.55
19 2 0.09
20 8 0.36
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (18 bp):
AATATATATTTTTACATA
Found at i:4783675 original size:16 final size:16
Alignment explanation
Indices: 4783654--4783692 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
4783644 CATAAATATA
4783654 ATATATA-TT-TATTT
1 ATATATATTTGTATTT
4783668 ATATATATTTGTATTT
1 ATATATATTTGTATTT
*
4783684 ATAAATATT
1 ATATATATT
4783693 ACTAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 7 0.32
15 2 0.09
16 13 0.59
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (16 bp):
ATATATATTTGTATTT
Found at i:4784088 original size:16 final size:16
Alignment explanation
Indices: 4784067--4784097 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4784057 ATTAAATAAT
*
4784067 ATGTATATGTATATAC
1 ATGTATATATATATAC
4784083 ATGTATATATATATA
1 ATGTATATATATATA
4784098 TGATATATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (16 bp):
ATGTATATATATATAC
Found at i:4784466 original size:27 final size:27
Alignment explanation
Indices: 4784412--4784466 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
4784402 TCTGTTTAAT
*
4784412 TATTATTTTATTATTAAAATATTGAAA
1 TATTATTTTATTATTAAAATATTAAAA
* *
4784439 TATTATTTT-TATATTAATATTTTAAAA
1 TATTATTTTAT-TATTAAAATATTAAAA
4784466 T
1 T
4784467 TAAAATAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 1 0.04
27 23 0.96
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (27 bp):
TATTATTTTATTATTAAAATATTAAAA
Found at i:4786156 original size:53 final size:52
Alignment explanation
Indices: 4786057--4786217 Score: 169
Period size: 53 Copynumber: 3.0 Consensus size: 52
4786047 AAGGAATCTT
* * * * *
4786057 CAATCCATTAAAAGGATTATTGCTTTTTATCAAGATCAAGCAATAACCCTTACA
1 CAATCCA-CAAAAAGATTCTTGCTTTTTAAC-AGATCAAGCGATAACCCTTACA
* * * *
4786111 CAATTCACAAAAAGATTCTTGCTTTTTAACGAGATAAAGTGATAACCTTTACA
1 CAATCCACAAAAAGATTCTTGCTTTTTAAC-AGATCAAGCGATAACCCTTACA
* * *
4786164 CAATCCACAAAGAAGACTCTTACTTTTTAACAGGATCAAGCGATGACCCTTACA
1 CAATCCACAAA-AAGATTCTTGCTTTTTAACA-GATCAAGCGATAACCCTTACA
4786218 AGCCTTTTAT
Statistics
Matches: 88, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
53 48 0.55
54 40 0.45
ACGTcount: A:0.39, C:0.21, G:0.11, T:0.29
Consensus pattern (52 bp):
CAATCCACAAAAAGATTCTTGCTTTTTAACAGATCAAGCGATAACCCTTACA
Found at i:4792407 original size:45 final size:45
Alignment explanation
Indices: 4792358--4792451 Score: 118
Period size: 45 Copynumber: 2.1 Consensus size: 45
4792348 ATTAAATTGA
* * *
4792358 AATAATACTGAATAATATTCTTTATTACATTGATTATA-TTCAAAT
1 AATAATACTAAATAATATTCTCTATAACATTGATTATAGTT-AAAT
* * *
4792403 AATAATATTAAATAATATTCTCTATAATATTTATTATAGTTAAAT
1 AATAATACTAAATAATATTCTCTATAACATTGATTATAGTTAAAT
4792448 AATA
1 AATA
4792452 TAAATATATT
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
45 40 0.95
46 2 0.05
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (45 bp):
AATAATACTAAATAATATTCTCTATAACATTGATTATAGTTAAAT
Found at i:4795373 original size:10 final size:11
Alignment explanation
Indices: 4795349--4795377 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
4795339 ACCAAACATC
4795349 AAATATCACTA
1 AAATATCACTA
4795360 AAATATCA-TA
1 AAATATCACTA
4795370 AAATATCA
1 AAATATCA
4795378 ACAATTTCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.28
Consensus pattern (11 bp):
AAATATCACTA
Found at i:4796727 original size:17 final size:18
Alignment explanation
Indices: 4796705--4796741 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
4796695 ACCAAAGTGC
4796705 TAAAAATATTAGTC-TAA
1 TAAAAATATTAGTCATAA
*
4796722 TAAAAATATTTGTCATAA
1 TAAAAATATTAGTCATAA
4796740 TA
1 TA
4796742 TCTAAAATAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (18 bp):
TAAAAATATTAGTCATAA
Found at i:4797179 original size:29 final size:29
Alignment explanation
Indices: 4797132--4797199 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
4797122 AGAGAAGAGG
4797132 TATACATGAAAAGGCATAAGAAAAGAAGC
1 TATACATGAAAAGGCATAAGAAAAGAAGC
* * * * *
4797161 TGTACATGAACAA-GTATAAGAGAATAAGT
1 TATACATGAA-AAGGCATAAGAAAAGAAGC
4797190 TATACATGAA
1 TATACATGAA
4797200 TAGATACAAG
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
29 30 0.94
30 2 0.06
ACGTcount: A:0.51, C:0.09, G:0.19, T:0.21
Consensus pattern (29 bp):
TATACATGAAAAGGCATAAGAAAAGAAGC
Found at i:4798128 original size:18 final size:18
Alignment explanation
Indices: 4798101--4798135 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
4798091 AACATCTAAC
* *
4798101 GTATAGTCACATGAAAGA
1 GTATAATCACATCAAAGA
4798119 GTATAATCACATCAAAG
1 GTATAATCACATCAAAG
4798136 TAAATCTAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.23
Consensus pattern (18 bp):
GTATAATCACATCAAAGA
Found at i:4798986 original size:19 final size:19
Alignment explanation
Indices: 4798962--4798999 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
4798952 CCATTTGACT
* *
4798962 TATTGGAGTATGATTTGAG
1 TATTGGAGCATAATTTGAG
4798981 TATTGGAGCATAATTTGAG
1 TATTGGAGCATAATTTGAG
4799000 GGTTTGGCAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.03, G:0.29, T:0.39
Consensus pattern (19 bp):
TATTGGAGCATAATTTGAG
Found at i:4811469 original size:17 final size:17
Alignment explanation
Indices: 4811428--4811461 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
4811418 TATGAAATTG
4811428 ACTTTGTACGATATCTA
1 ACTTTGTACGATATCTA
*
4811445 ACTTTGTATGATATCTA
1 ACTTTGTACGATATCTA
4811462 TTTTTGTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (17 bp):
ACTTTGTACGATATCTA
Found at i:4812288 original size:27 final size:27
Alignment explanation
Indices: 4812258--4812321 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
4812248 TATTCTAAGA
*
4812258 ATACATTTA-ACAACTAGAAATGGAAGG
1 ATACCTTTACACAA-TAGAAATGGAAGG
* * *
4812285 ATACCTTTACGCAATAGAAGTGGATGG
1 ATACCTTTACACAATAGAAATGGAAGG
4812312 ATACCTTTAC
1 ATACCTTTAC
4812322 CTATCACAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 29 0.91
28 3 0.09
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.27
Consensus pattern (27 bp):
ATACCTTTACACAATAGAAATGGAAGG
Found at i:4812332 original size:27 final size:27
Alignment explanation
Indices: 4812278--4812362 Score: 100
Period size: 27 Copynumber: 3.1 Consensus size: 27
4812268 CAACTAGAAA
* * *
4812278 TGGAAGGATACCTTTACGCAAT-AGAAG
1 TGGATGGATACCTTTAC-CTATCACAAG
4812305 TGGATGGATACCTTTACCTATCACAAG
1 TGGATGGATACCTTTACCTATCACAAG
* * *
4812332 TGGATGGATACTTTTACCTACCACAAT
1 TGGATGGATACCTTTACCTATCACAAG
4812359 TGGA
1 TGGA
4812363 AGTGAAGAGA
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
26 3 0.06
27 48 0.94
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (27 bp):
TGGATGGATACCTTTACCTATCACAAG
Found at i:4814137 original size:13 final size:13
Alignment explanation
Indices: 4814119--4814143 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4814109 AGAGAAATTG
4814119 TGATTTTATAAAA
1 TGATTTTATAAAA
4814132 TGATTTTATAAA
1 TGATTTTATAAA
4814144 TTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:4815446 original size:14 final size:15
Alignment explanation
Indices: 4815421--4815453 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
4815411 TGCGTGGCCC
4815421 AAGTTAAGTTAAGTT
1 AAGTTAAGTTAAGTT
4815436 AAGTT-AGTTAAGTT
1 AAGTTAAGTTAAGTT
4815450 AAGT
1 AAGT
4815454 CAGGTTAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (15 bp):
AAGTTAAGTTAAGTT
Found at i:4815460 original size:19 final size:19
Alignment explanation
Indices: 4815422--4815461 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
4815412 GCGTGGCCCA
*
4815422 AGTTAAGTTAAGTTAAGTT
1 AGTTAAGTTAAGTCAAGTT
*
4815441 AGTTAAGTTAAGTCAGGTT
1 AGTTAAGTTAAGTCAAGTT
4815460 AG
1 AG
4815462 GTAGAATAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.35, C:0.03, G:0.25, T:0.38
Consensus pattern (19 bp):
AGTTAAGTTAAGTCAAGTT
Found at i:4815463 original size:5 final size:5
Alignment explanation
Indices: 4815421--4815453 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
4815411 TGCGTGGCCC
4815421 AAGTT AAGTT AAGTT AAGTT -AGTT AAGTT AAGT
1 AAGTT AAGTT AAGTT AAGTT AAGTT AAGTT AAGT
4815454 CAGGTTAGGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.39, C:0.00, G:0.21, T:0.39
Consensus pattern (5 bp):
AAGTT
Found at i:4820349 original size:12 final size:13
Alignment explanation
Indices: 4820319--4820343 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4820309 AGAGAAATTG
4820319 TGATTTTATAAAA
1 TGATTTTATAAAA
4820332 TGATTTTATAAA
1 TGATTTTATAAA
4820344 TTATTTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:4824139 original size:129 final size:129
Alignment explanation
Indices: 4823908--4824168 Score: 425
Period size: 129 Copynumber: 2.0 Consensus size: 129
4823898 GTGGCCCGAA
*
4823908 CGTGAGGTGCATTCAAATCATACCTCAAGAGATACTTCACCCAACATCTCCCCCCGGAGGTAAGT
1 CGTGAGGTGCATTCAAATCATACCTCAAGAGATACTTCACCCAACATCTCCCCCCGGAGGTAAAT
* *
4823973 ATATAATTGAGTTATCGTGCCCCTCTCATAGGCAGTCCACGGAAACCCCCACCACTGCAGTGAC
66 ATATAATTGAGTTATCATGCCCCTCTCATAGGCAGTCCACGAAAACCCCCACCACTGCAGTGAC
* *
4824037 CGTGAGGTGCATTCAAATCTTACCTCAAGAGATACTTCATCCAACATCTCCCCCCGGAGGTAAAT
1 CGTGAGGTGCATTCAAATCATACCTCAAGAGATACTTCACCCAACATCTCCCCCCGGAGGTAAAT
* * * *
4824102 ATATAATTGGGTTA-CTATGCCTCTCTCATAGGTAGTCCACGAAAACCCTCACCACTGCAGTGAC
66 ATATAATTGAGTTATC-ATGCCCCTCTCATAGGCAGTCCACGAAAACCCCCACCACTGCAGTGAC
4824166 CGT
1 CGT
4824169 TTAATATACC
Statistics
Matches: 122, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
128 1 0.01
129 121 0.99
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (129 bp):
CGTGAGGTGCATTCAAATCATACCTCAAGAGATACTTCACCCAACATCTCCCCCCGGAGGTAAAT
ATATAATTGAGTTATCATGCCCCTCTCATAGGCAGTCCACGAAAACCCCCACCACTGCAGTGAC
Found at i:4825604 original size:28 final size:28
Alignment explanation
Indices: 4825552--4825610 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
4825542 GACAAAATGT
** *
4825552 CCTGATGGTGGAAAATTACTGTTTTGCC
1 CCTGATGGTGGAAAATTACCATTTTACC
4825580 CCTGA-GGTGGTAAAATTACCATTTTACC
1 CCTGATGGTGG-AAAATTACCATTTTACC
4825608 CCT
1 CCT
4825611 ATACTCTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (28 bp):
CCTGATGGTGGAAAATTACCATTTTACC
Found at i:4825680 original size:20 final size:20
Alignment explanation
Indices: 4825663--4825700 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
4825653 CCTCAAATCT
4825663 TACTCCAATAAGTCAAATTA
1 TACTCCAATAAGTCAAATTA
4825683 TACTCCAATAAGTCAAAT
1 TACTCCAATAAGTCAAAT
4825701 GGGGCCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (20 bp):
TACTCCAATAAGTCAAATTA
Found at i:4826536 original size:18 final size:19
Alignment explanation
Indices: 4826499--4826539 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
4826489 TAAACAATAG
4826499 TAATATAGCATAACTTATAT
1 TAATATAG-ATAACTTATAT
*
4826519 TAATATAG-TAAGTTATAT
1 TAATATAGATAACTTATAT
4826537 TAA
1 TAA
4826540 ATTATTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 12 0.60
20 8 0.40
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.41
Consensus pattern (19 bp):
TAATATAGATAACTTATAT
Found at i:4826595 original size:16 final size:18
Alignment explanation
Indices: 4826562--4826603 Score: 63
Period size: 16 Copynumber: 2.5 Consensus size: 18
4826552 AGTGTACTAC
4826562 AGTAATATAACTTATATT
1 AGTAATATAACTTATATT
4826580 AGTAAT-TAAC-TATATT
1 AGTAATATAACTTATATT
4826596 A-TAATATA
1 AGTAATATA
4826604 TAACAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
15 4 0.17
16 9 0.39
17 4 0.17
18 6 0.26
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (18 bp):
AGTAATATAACTTATATT
Found at i:4826612 original size:18 final size:18
Alignment explanation
Indices: 4826586--4826623 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
4826576 TATTAGTAAT
*
4826586 TAACTATAT-TATAATATA
1 TAACAATATATAT-ATATA
4826604 TAACAATATATATATATA
1 TAACAATATATATATATA
4826622 TA
1 TA
4826624 TTATAGTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (18 bp):
TAACAATATATATATATA
Found at i:4826698 original size:18 final size:20
Alignment explanation
Indices: 4826657--4826697 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
4826647 TATTTAGTCA
*
4826657 ATAACAATTTACTATTATAT
1 ATAACAATATACTATTATAT
4826677 ATAACAATATACTATTATAT
1 ATAACAATATACTATTATAT
4826697 A
1 A
4826698 ATATATTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (20 bp):
ATAACAATATACTATTATAT
Found at i:4827312 original size:28 final size:28
Alignment explanation
Indices: 4827280--4827334 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
4827270 ATGTTACAAA
* *
4827280 CAAATAAATTATACCAAATATAAATAAG
1 CAAATAAATTACACCAAACATAAATAAG
*
4827308 CAAATAAATTACATCAAACATAAATAA
1 CAAATAAATTACACCAAACATAAATAA
4827335 AGTTTTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.62, C:0.13, G:0.02, T:0.24
Consensus pattern (28 bp):
CAAATAAATTACACCAAACATAAATAAG
Found at i:4829904 original size:13 final size:13
Alignment explanation
Indices: 4829886--4829910 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4829876 GGAAAATGGG
4829886 ATTTTATAAAATA
1 ATTTTATAAAATA
4829899 ATTTTATAAAAT
1 ATTTTATAAAAT
4829911 TTTTGAAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
ATTTTATAAAATA
Found at i:4835855 original size:13 final size:13
Alignment explanation
Indices: 4835837--4835861 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
4835827 TTTCAGAAAA
4835837 TTTATAAAATCAT
1 TTTATAAAATCAT
4835850 TTTATAAAATCA
1 TTTATAAAATCA
4835862 CAATTTCTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:4837148 original size:19 final size:19
Alignment explanation
Indices: 4837124--4837160 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
4837114 CTTCTAAACT
4837124 TCAAATCATACTCCAATAC
1 TCAAATCATACTCCAATAC
4837143 TCAAATCATACTCCAATA
1 TCAAATCATACTCCAATA
4837161 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.43, C:0.30, G:0.00, T:0.27
Consensus pattern (19 bp):
TCAAATCATACTCCAATAC
Found at i:4838072 original size:2 final size:2
Alignment explanation
Indices: 4838060--4838089 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
4838050 TAGCTGTAGC
*
4838060 AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4838090 TTAAAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4838184 original size:54 final size:54
Alignment explanation
Indices: 4838119--4838226 Score: 189
Period size: 54 Copynumber: 2.0 Consensus size: 54
4838109 ATTATATATG
4838119 GTACTACTTACTTGATATATATATACATATACACAAAAATCCCTAAAAAATTTA
1 GTACTACTTACTTGATATATATATACATATACACAAAAATCCCTAAAAAATTTA
* * *
4838173 GTACTGCTTACTTGATATATATATATATATACACGAAAATCCCTAAAAAATTTA
1 GTACTACTTACTTGATATATATATACATATACACAAAAATCCCTAAAAAATTTA
4838227 AGTTGCTTGA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 51 1.00
ACGTcount: A:0.44, C:0.16, G:0.06, T:0.34
Consensus pattern (54 bp):
GTACTACTTACTTGATATATATATACATATACACAAAAATCCCTAAAAAATTTA
Found at i:4864399 original size:30 final size:30
Alignment explanation
Indices: 4864363--4864435 Score: 110
Period size: 30 Copynumber: 2.4 Consensus size: 30
4864353 TTGATTGAGG
*
4864363 ATGAAGATGATGACATGCAAAGAGATGAAA
1 ATGAAGATGATGAAATGCAAAGAGATGAAA
* * *
4864393 ATGAAGAAGATGAAATGGAAGGAGATGAAA
1 ATGAAGATGATGAAATGCAAAGAGATGAAA
4864423 ATGAAGATGATGA
1 ATGAAGATGATGA
4864436 TGAAGAAGAA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.51, C:0.03, G:0.30, T:0.16
Consensus pattern (30 bp):
ATGAAGATGATGAAATGCAAAGAGATGAAA
Found at i:4864449 original size:30 final size:29
Alignment explanation
Indices: 4864363--4864451 Score: 85
Period size: 30 Copynumber: 3.0 Consensus size: 29
4864353 TTGATTGAGG
*
4864363 ATGAAGATGATGACATGCA-AAGAGATGAAA
1 ATGAAGATGATG--ATGAAGAAGAGATGAAA
*
4864393 ATGAAGAAGATGA--AATGGAAGGAGATGAAA
1 ATGAAGATGATGATGAA--GAA-GAGATGAAA
4864423 ATGAAGATGATGATGAAGAAGAAGATGAA
1 ATGAAGATGATGATGAAGAAG-AGATGAA
4864452 TTTGAAGACG
Statistics
Matches: 49, Mismatches: 3, Indels: 14
0.74 0.05 0.21
Matches are distributed among these distances:
26 1 0.02
28 1 0.02
29 3 0.06
30 42 0.86
32 2 0.04
ACGTcount: A:0.52, C:0.02, G:0.30, T:0.16
Consensus pattern (29 bp):
ATGAAGATGATGATGAAGAAGAGATGAAA
Found at i:4864459 original size:15 final size:15
Alignment explanation
Indices: 4864385--4864451 Score: 75
Period size: 15 Copynumber: 4.5 Consensus size: 15
4864375 ACATGCAAAG
4864385 AGATGAAAATGAAGA
1 AGATGAAAATGAAGA
*
4864400 AGATG-AAATGGAAGG
1 AGATGAAAAT-GAAGA
4864415 AGATGAAAATGAAGA
1 AGATGAAAATGAAGA
* *
4864430 TGATGATGAA-GAAGA
1 AGATGA-AAATGAAGA
4864445 AGATGAA
1 AGATGAA
4864452 TTTGAAGACG
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
14 4 0.09
15 33 0.77
16 6 0.14
ACGTcount: A:0.54, C:0.00, G:0.31, T:0.15
Consensus pattern (15 bp):
AGATGAAAATGAAGA
Found at i:4865746 original size:29 final size:28
Alignment explanation
Indices: 4865705--4865874 Score: 214
Period size: 29 Copynumber: 5.9 Consensus size: 28
4865695 GACAGCTTTG
4865705 ACATGTTTGTCTTAATTTAGACAAGAAA
1 ACATGTTTGTCTTAATTTAGACAAGAAA
4865733 ACATGTTTGGTCTTAATTTAGACAAGAAA
1 ACATGTTT-GTCTTAATTTAGACAAGAAA
4865762 ACATGTTTGGTCTTAATTTAGACAAGAAA
1 ACATGTTT-GTCTTAATTTAGACAAGAAA
* * **
4865791 ATATTTTTACCTTAATTTAAGACAAGAAAA
1 ACATGTTTGTCTTAATTT-AGACAAG-AAA
* * * *
4865821 ATATTTTTCTCTTAATTTAGTCAAGAAA
1 ACATGTTTGTCTTAATTTAGACAAGAAA
* *
4865849 ACATATTTGTCTCAATTTAGACAAGA
1 ACATGTTTGTCTTAATTTAGACAAGA
4865875 TAAAATATTT
Statistics
Matches: 127, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
28 40 0.31
29 68 0.54
30 19 0.15
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.37
Consensus pattern (28 bp):
ACATGTTTGTCTTAATTTAGACAAGAAA
Found at i:4866071 original size:17 final size:17
Alignment explanation
Indices: 4866049--4866081 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
4866039 ATAATAATAA
4866049 AATAA-GAGTTATTATTC
1 AATAAGGAGTT-TTATTC
4866066 AATAAGGAGTTTTATT
1 AATAAGGAGTTTTATT
4866082 TTATCAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.39, C:0.03, G:0.15, T:0.42
Consensus pattern (17 bp):
AATAAGGAGTTTTATTC
Found at i:4874569 original size:2 final size:2
Alignment explanation
Indices: 4874562--4874592 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4874552 TAATACAATA
4874562 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4874593 ACCAACATGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:4880785 original size:68 final size:68
Alignment explanation
Indices: 4880707--4880836 Score: 206
Period size: 68 Copynumber: 1.9 Consensus size: 68
4880697 GTGTAAGAAG
* *
4880707 ATTATAAATTAAAAGTGGTCCTAAAGATGAATAAACAGGGTAGAAATACCAGATATATATATTTT
1 ATTATAAATTAAAAGTGGTCCTAAAGATGAATAAACAGGGCAGAAATAACAGATATATATATTTT
4880772 TAT
66 TAT
* * * *
4880775 ATTATAAATTAGAAGTGGTCCTAAAGATGAATTAACAGGGCAGAAATAATATATATATATAT
1 ATTATAAATTAAAAGTGGTCCTAAAGATGAATAAACAGGGCAGAAATAACAGATATATATAT
4880837 ATATACACAC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
68 56 1.00
ACGTcount: A:0.46, C:0.07, G:0.15, T:0.32
Consensus pattern (68 bp):
ATTATAAATTAAAAGTGGTCCTAAAGATGAATAAACAGGGCAGAAATAACAGATATATATATTTT
TAT
Found at i:4883897 original size:27 final size:28
Alignment explanation
Indices: 4883860--4883919 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
4883850 TTTTGGAGCA
*
4883860 TAGGGGCAAAACGGTAATTTTGCCACC-C
1 TAGGGGAAAAACGGTAATTTT-CCACCAC
*
4883888 TAGGGGAAAAATGGTAATTTTCCACCAC
1 TAGGGGAAAAACGGTAATTTTCCACCAC
4883916 TAGG
1 TAGG
4883920 ACACTTGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (28 bp):
TAGGGGAAAAACGGTAATTTTCCACCAC
Found at i:4893333 original size:99 final size:98
Alignment explanation
Indices: 4893173--4893409 Score: 325
Period size: 99 Copynumber: 2.4 Consensus size: 98
4893163 ACTTTTTTTT
* * * *
4893173 AACATGATGTGTAATAA-TTTTTTTTCAACATTGCATGTAACATGGTTCGTAACTTTGTATTTCA
1 AACATGGTGTGTAATAACTTTTTTTTCAACATGGCGTGTAACATGGTTCGTAACTTTATATTTCA
* *
4893237 CTAGAACATAAACTCTTGAAGTTAAATAGCTTA
66 CTAGAACATAAACTATTGAAGTTAAATACCTTA
* * *
4893270 AACATGGTGTGTTATAACTATTTTTTTCAACATGGCGTGTAACTTGGTCTC-TATCTTTATATTT
1 AACATGGTGTGTAATAACT-TTTTTTTCAACATGGCGTGTAACATGGT-TCGTAACTTTATATTT
4893334 CACTAGAACATAAACTATTGAAGTTAAATACCTTA
64 CACTAGAACATAAACTATTGAAGTTAAATACCTTA
* *
4893369 AACATAGTGTGTAATAACTTTTTTTTTTCAACATGACGTGT
1 AACATGGTGTGTAATAAC--TTTTTTTTCAACATGGCGTGT
4893410 GATTACTTTT
Statistics
Matches: 123, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
97 15 0.12
98 1 0.01
99 85 0.69
100 21 0.17
101 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.14, T:0.41
Consensus pattern (98 bp):
AACATGGTGTGTAATAACTTTTTTTTCAACATGGCGTGTAACATGGTTCGTAACTTTATATTTCA
CTAGAACATAAACTATTGAAGTTAAATACCTTA
Found at i:4893467 original size:28 final size:29
Alignment explanation
Indices: 4893377--4893468 Score: 114
Period size: 29 Copynumber: 3.2 Consensus size: 29
4893367 TAAACATAGT
*
4893377 GTGTAATAACTTTTTTTTTTCAACATGAC
1 GTGTAATAACTTTTTTTTTTCAACATGGC
* * *
4893406 GTGTGATTACTTTTTTTTTTCAACAAGGC
1 GTGTAATAACTTTTTTTTTTCAACATGGC
* * *
4893435 ATGTAATAAC-TTTTTCTTTCAACATGGT
1 GTGTAATAACTTTTTTTTTTCAACATGGC
4893463 GTGTAA
1 GTGTAA
4893469 CTTGGTCTCT
Statistics
Matches: 52, Mismatches: 11, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
28 20 0.38
29 32 0.62
ACGTcount: A:0.26, C:0.13, G:0.14, T:0.47
Consensus pattern (29 bp):
GTGTAATAACTTTTTTTTTTCAACATGGC
Found at i:4893530 original size:128 final size:129
Alignment explanation
Indices: 4893398--4893685 Score: 329
Period size: 129 Copynumber: 2.3 Consensus size: 129
4893388 TTTTTTTTTC
* * * * * *
4893398 AACATGACGTGTGATTACTTTTTTTTTTCAACAAGGCATGTAATAACT-TT-T-TCTTTCAACAT
1 AACATGACGTGTAATAACATTATTTTTTCAACAAGGCATGTAACAA-TATTATGT-TTTAAACAT
* *
4893460 GGTGTGTAACTTGGTCTCTATCTTTGTATTTCAGTAGGA-CATAAACTCTT-AGAGTTAAACACC
64 GATGTGTAACTTGGTCTCTATCTTTGTATTTCACTA-GATCATAAACT-TTCAGAGTTAAACACC
4893523 TAA
127 TAA
* * *
4893526 AACATGATGTGTAATAACATTATTTTTTCAACATGGCATGTAACAATATTATGTTTTAAACATTA
1 AACATGACGTGTAATAACATTATTTTTTCAACAAGGCATGTAACAATATTATGTTTTAAACATGA
* * *
4893591 TGTGTAACTTGGTCTTTATCTTTGTATTTCACTAGATCATAAACTTTCGGAGTTAAACACCTTA
66 TGTGTAACTTGGTCTCTATCTTTGTATTTCACTAGATCATAAACTTTCAGAGTTAAACACCTAA
* * * *
4893655 AACATGGCATGTAA-CA-ATTTTTTTTTCAACA
1 AACATGACGTGTAATAACATTATTTTTTCAACA
4893686 TGACCTGTAA
Statistics
Matches: 136, Mismatches: 19, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
127 15 0.11
128 46 0.34
129 74 0.54
130 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.40
Consensus pattern (129 bp):
AACATGACGTGTAATAACATTATTTTTTCAACAAGGCATGTAACAATATTATGTTTTAAACATGA
TGTGTAACTTGGTCTCTATCTTTGTATTTCACTAGATCATAAACTTTCAGAGTTAAACACCTAA
Found at i:4893552 original size:129 final size:129
Alignment explanation
Indices: 4893420--4893660 Score: 330
Period size: 129 Copynumber: 1.9 Consensus size: 129
4893410 GATTACTTTT
* * *
4893420 TTTTTTCAACAAGGCATGTAATAACT-TT-T-TCTTTCAACATGGTGTGTAACTTGGTCTCTATC
1 TTTTTTCAACAAGGCATGTAACAA-TATTATGT-TTTAAACATGATGTGTAACTTGGTCTCTATC
*
4893482 TTTGTATTTCAGTAGGA-CATAAACTCTT-AGAGTTAAACACCTAAAACATGATGTGTAATAACA
64 TTTGTATTTCACTA-GATCATAAACT-TTCAGAGTTAAACACCTAAAACATGATGTGTAATAACA
4893545 TTA
127 TTA
* * *
4893548 TTTTTTCAACATGGCATGTAACAATATTATGTTTTAAACATTATGTGTAACTTGGTCTTTATCTT
1 TTTTTTCAACAAGGCATGTAACAATATTATGTTTTAAACATGATGTGTAACTTGGTCTCTATCTT
* *
4893613 TGTATTTCACTAGATCATAAACTTTCGGAGTTAAACACCTTAAACATG
66 TGTATTTCACTAGATCATAAACTTTCAGAGTTAAACACCTAAAACATG
4893661 GCATGTAACA
Statistics
Matches: 99, Mismatches: 9, Indels: 9
0.85 0.08 0.08
Matches are distributed among these distances:
127 1 0.01
128 28 0.28
129 69 0.70
130 1 0.01
ACGTcount: A:0.32, C:0.15, G:0.13, T:0.40
Consensus pattern (129 bp):
TTTTTTCAACAAGGCATGTAACAATATTATGTTTTAAACATGATGTGTAACTTGGTCTCTATCTT
TGTATTTCACTAGATCATAAACTTTCAGAGTTAAACACCTAAAACATGATGTGTAATAACATTA
Found at i:4893597 original size:157 final size:156
Alignment explanation
Indices: 4893267--4893597 Score: 375
Period size: 157 Copynumber: 2.1 Consensus size: 156
4893257 GTTAAATAGC
* *
4893267 TTAAACATGGTGTGTTATAACTATTTTTTTCAACATGGCGTGTAACTTGGTCTCTATCTTTATAT
1 TTAAACAT-ATGTGTAATAACTATTTTTTTCAACATGGCGTGTAACTTGGTCTCTATCTTTATAT
* * * *
4893332 TTCACTAGAACATAAACTATTGAAGTTAAATACCTTAAACATAGTGTGTAATAACTTTTTTTTTT
65 TTCACTAGAACATAAACTATTGAAGTTAAACACCTAAAACATAGTGTGTAATAACATTATTTTTT
* ** * * *
4893397 CAACATGACGTGTGATTACTTTTTTTT
130 CAACATGACATGTGAACAATTTATGTT
* * * *
4893424 TTCAACA-AGGCATGTAATAACT-TTTTCTTTCAACATGGTGTGTAACTTGGTCTCTATCTTTGT
1 TTAAACATATG--TGTAATAACTATTTT-TTTCAACATGGCGTGTAACTTGGTCTCTATCTTTAT
* * *
4893487 ATTTCAGTAGGACATAAACTCTT-AGAGTTAAACACCTAAAACAT-GATGTGTAATAACATTATT
63 ATTTCACTAGAACATAAACTATTGA-AGTTAAACACCTAAAACATAG-TGTGTAATAACATTATT
*
4893550 TTTTCAACATGGCATGT-AACAATATTATGTT
126 TTTTCAACATGACATGTGAACAAT-TTATGTT
4893581 TTAAACATTATGTGTAA
1 TTAAACA-TATGTGTAA
4893598 CTTGGTCTTT
Statistics
Matches: 144, Mismatches: 22, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
155 1 0.01
156 9 0.06
157 132 0.92
159 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.41
Consensus pattern (156 bp):
TTAAACATATGTGTAATAACTATTTTTTTCAACATGGCGTGTAACTTGGTCTCTATCTTTATATT
TCACTAGAACATAAACTATTGAAGTTAAACACCTAAAACATAGTGTGTAATAACATTATTTTTTC
AACATGACATGTGAACAATTTATGTT
Found at i:4893694 original size:27 final size:29
Alignment explanation
Indices: 4893655--4893709 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 29
4893645 AAACACCTTA
*
4893655 AACATGGCATGTAAC-A-ATTTTTTTTTC
1 AACATGACATGTAACAACATTTTTTTTTC
*
4893682 AACATGACCTGTAACAACATTTTTTTTT
1 AACATGACATGTAACAACATTTTTTTTT
4893710 TGGTGTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 13 0.54
28 1 0.04
29 10 0.42
ACGTcount: A:0.31, C:0.16, G:0.09, T:0.44
Consensus pattern (29 bp):
AACATGACATGTAACAACATTTTTTTTTC
Found at i:4894420 original size:39 final size:39
Alignment explanation
Indices: 4894364--4894460 Score: 117
Period size: 39 Copynumber: 2.5 Consensus size: 39
4894354 CAAGTGATAG
*
4894364 AGTAAAG-CTGAGAATAGGTAGAGAATAGACGAGAAGTAGA
1 AGTAAAGTC-GAGAATAGGTAGAGAATAGACCAGAAGTA-A
* * *
4894404 A-TAAAGTCGAGAATAGGTAGATAATAGGCCAGTAGTAA
1 AGTAAAGTCGAGAATAGGTAGAGAATAGACCAGAAGTAA
*
4894442 AGTAAAGTTGAGAATAGGT
1 AGTAAAGTCGAGAATAGGT
4894461 GAGCCGTAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
38 2 0.04
39 46 0.92
40 2 0.04
ACGTcount: A:0.45, C:0.05, G:0.30, T:0.20
Consensus pattern (39 bp):
AGTAAAGTCGAGAATAGGTAGAGAATAGACCAGAAGTAA
Found at i:4894940 original size:15 final size:14
Alignment explanation
Indices: 4894903--4894984 Score: 58
Period size: 14 Copynumber: 5.6 Consensus size: 14
4894893 AAGTAAGAGG
* * *
4894903 GAAAATGTATATGT
1 GAAAAGGTATAAGA
4894917 GAAAAGGTATAAGA
1 GAAAAGGTATAAGA
4894931 GAATAAGGTA-AGAGAA
1 GAA-AAGGTATA-AG-A
* * * *
4894947 AAAAAAGTATATGT
1 GAAAAGGTATAAGA
4894961 GAAAAGGTATAAGA
1 GAAAAGGTATAAGA
4894975 GAACAAGGTA
1 GAA-AAGGTA
4894985 AGAGGGCAGA
Statistics
Matches: 52, Mismatches: 11, Indels: 9
0.72 0.15 0.12
Matches are distributed among these distances:
14 28 0.54
15 20 0.38
16 4 0.08
ACGTcount: A:0.54, C:0.01, G:0.26, T:0.20
Consensus pattern (14 bp):
GAAAAGGTATAAGA
Found at i:4894959 original size:44 final size:44
Alignment explanation
Indices: 4894904--4894988 Score: 152
Period size: 44 Copynumber: 1.9 Consensus size: 44
4894894 AGTAAGAGGG
* *
4894904 AAAATGTATATGTGAAAAGGTATAAGAGAATAAGGTAAGAGAAA
1 AAAAAGTATATGTGAAAAGGTATAAGAGAACAAGGTAAGAGAAA
4894948 AAAAAGTATATGTGAAAAGGTATAAGAGAACAAGGTAAGAG
1 AAAAAGTATATGTGAAAAGGTATAAGAGAACAAGGTAAGAG
4894989 GGCAGAGGTA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.54, C:0.01, G:0.26, T:0.19
Consensus pattern (44 bp):
AAAAAGTATATGTGAAAAGGTATAAGAGAACAAGGTAAGAGAAA
Found at i:4897749 original size:33 final size:33
Alignment explanation
Indices: 4897712--4897780 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
4897702 GAGGATGAGT
4897712 AAACCAAAATCTAGTTTCTAAAATTTCTTCAAC
1 AAACCAAAATCTAGTTTCTAAAATTTCTTCAAC
4897745 AAACCAAAATCTAGTTTCTAAAATTTCTTCAAC
1 AAACCAAAATCTAGTTTCTAAAATTTCTTCAAC
4897778 AAA
1 AAA
4897781 AAGCTGCACA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.45, C:0.20, G:0.03, T:0.32
Consensus pattern (33 bp):
AAACCAAAATCTAGTTTCTAAAATTTCTTCAAC
Found at i:4897974 original size:33 final size:33
Alignment explanation
Indices: 4897951--4898127 Score: 126
Period size: 33 Copynumber: 5.4 Consensus size: 33
4897941 TTTCCAGGTT
4897951 CAAGCACAAA-CCACAATTGCCTTTTTACAAGAG
1 CAAGCA-AAACCCACAATTGCCTTTTTACAAGAG
* ** *
4897984 CAAGCAAAACCCAGAATTGCCTTTTTATGAGAA
1 CAAGCAAAACCCACAATTGCCTTTTTACAAGAG
* * * *
4898017 CAAGTACAACCCAC-ATATGCCTTTTCACATGAG
1 CAAGCAAAACCCACAAT-TGCCTTTTTACAAGAG
* ** * *
4898050 CAAGCACAACTAACAATT-TCTTTTTCACGAGAG
1 CAAGCAAAACCCACAATTGCCTTTTT-ACAAGAG
* ** * * *
4898083 CAAGCACAATGCATAATTGCCTTTTCACGAGAG
1 CAAGCAAAACCCACAATTGCCTTTTTACAAGAG
*
4898116 CAAGCACAACCC
1 CAAGCAAAACCC
4898128 TTATAATGTT
Statistics
Matches: 112, Mismatches: 27, Indels: 10
0.75 0.18 0.07
Matches are distributed among these distances:
32 10 0.09
33 95 0.85
34 7 0.06
ACGTcount: A:0.37, C:0.27, G:0.14, T:0.23
Consensus pattern (33 bp):
CAAGCAAAACCCACAATTGCCTTTTTACAAGAG
Found at i:4901111 original size:22 final size:23
Alignment explanation
Indices: 4901083--4901129 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
4901073 GCATCATGTT
*
4901083 TAGGATAAATGGGTAATGG-CCA
1 TAGGATAAATGGATAATGGTCCA
*
4901105 TAGGATAGATGGATAATGGTCCA
1 TAGGATAAATGGATAATGGTCCA
4901128 TA
1 TA
4901130 ATACATAGTA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.36, C:0.09, G:0.30, T:0.26
Consensus pattern (23 bp):
TAGGATAAATGGATAATGGTCCA
Found at i:4910027 original size:21 final size:20
Alignment explanation
Indices: 4910002--4910042 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
4909992 CCAACATTTC
4910002 TAACCAT-TAAATATCAGCCAA
1 TAACCATCTAAA-ATCA-CCAA
4910023 TAACCATCTAAAATCACCAA
1 TAACCATCTAAAATCACCAA
4910043 AATCAGCTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.21
21 11 0.58
22 4 0.21
ACGTcount: A:0.49, C:0.27, G:0.02, T:0.22
Consensus pattern (20 bp):
TAACCATCTAAAATCACCAA
Found at i:4914504 original size:15 final size:15
Alignment explanation
Indices: 4914484--4914529 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
4914474 TTCTTAAAAC
4914484 AACTTTAAAACCAAA
1 AACTTTAAAACCAAA
4914499 AACTTTAAAATCC-AA
1 AACTTTAAAA-CCAAA
**
4914514 AGTTTTAAAACCAAA
1 AACTTTAAAACCAAA
4914529 A
1 A
4914530 TCTCTGATCT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 2 0.07
15 23 0.85
16 2 0.07
ACGTcount: A:0.57, C:0.17, G:0.02, T:0.24
Consensus pattern (15 bp):
AACTTTAAAACCAAA
Found at i:4917792 original size:15 final size:15
Alignment explanation
Indices: 4917772--4917802 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4917762 AAATCATGTT
4917772 ACCAATTGTGAAGAA
1 ACCAATTGTGAAGAA
*
4917787 ACCAATTGTTAAGAA
1 ACCAATTGTGAAGAA
4917802 A
1 A
4917803 TCATTGAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.13, G:0.16, T:0.23
Consensus pattern (15 bp):
ACCAATTGTGAAGAA
Found at i:4919660 original size:17 final size:18
Alignment explanation
Indices: 4919638--4919676 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
4919628 AGTTTTGGGC
4919638 AAAAGGGA-GAAGAAAAA
1 AAAAGGGAGGAAGAAAAA
*
4919655 AAAA-GGAGGAAGAAAGA
1 AAAAGGGAGGAAGAAAAA
4919672 AAAAG
1 AAAAG
4919677 AAAAAGCACC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 3 0.16
17 16 0.84
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (18 bp):
AAAAGGGAGGAAGAAAAA
Found at i:4920337 original size:15 final size:14
Alignment explanation
Indices: 4920299--4920346 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
4920289 TGTTTACTCG
4920299 GAAAAAAAT-AAAGA
1 GAAAAAAATGAAA-A
4920313 GAAAAAAATGAAAA
1 GAAAAAAATGAAAA
4920327 GAAAAATAATGCAAAA
1 GAAAAA-AATG-AAAA
4920343 -AAAA
1 GAAAA
4920347 GTGAAGGGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 16 0.52
15 11 0.35
16 4 0.13
ACGTcount: A:0.77, C:0.02, G:0.12, T:0.08
Consensus pattern (14 bp):
GAAAAAAATGAAAA
Found at i:4921189 original size:3 final size:3
Alignment explanation
Indices: 4921181--4921207 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
4921171 GCTCAAAAGC
4921181 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
4921208 TGATCTATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:4925574 original size:20 final size:20
Alignment explanation
Indices: 4925512--4925581 Score: 70
Period size: 20 Copynumber: 3.4 Consensus size: 20
4925502 AGAAGTCTCG
4925512 AGACTTTTGTAAAAGTCTT-A
1 AGACTTTTGTAAAAGT-TTCA
* * *
4925532 ATACTTTTATGAAAAATTATCA
1 AGACTTTTGT-AAAAGTT-TCA
4925554 AGACTTTTGTAAAAGTTTCA
1 AGACTTTTGTAAAAGTTTCA
*
4925574 ACACTTTT
1 AGACTTTT
4925582 CTGCAAATTT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
20 19 0.47
21 12 0.30
22 9 0.22
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.41
Consensus pattern (20 bp):
AGACTTTTGTAAAAGTTTCA
Found at i:4930108 original size:17 final size:19
Alignment explanation
Indices: 4930067--4930108 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
4930057 ATGTATATCT
4930067 ATGAATATATGTTGTGCATTG
1 ATGAATATATGTTGTG-A-TG
4930088 ATGAATA-ATGTTGTG-TG
1 ATGAATATATGTTGTGATG
4930105 ATGA
1 ATGA
4930109 TGTTGAAGTG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 6 0.29
20 8 0.38
21 7 0.33
ACGTcount: A:0.31, C:0.02, G:0.26, T:0.40
Consensus pattern (19 bp):
ATGAATATATGTTGTGATG
Found at i:4930145 original size:37 final size:37
Alignment explanation
Indices: 4930103--4930221 Score: 195
Period size: 37 Copynumber: 3.2 Consensus size: 37
4930093 TAATGTTGTG
*
4930103 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACATA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
4930140 TGATGATGTT-AGAGTGTGCGAGTAGGGAGTGCACACA
1 TGATGATGTTGA-AGTGTGCGAGTAGGGAGTGCACACA
**
4930177 TGATGATGTTGAAGTGTGCGAGTACAGAGTGCACACA
1 TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
4930214 TGATGATG
1 TGATGATG
4930222 ATATTGCATT
Statistics
Matches: 77, Mismatches: 3, Indels: 4
0.92 0.04 0.05
Matches are distributed among these distances:
36 1 0.01
37 75 0.97
38 1 0.01
ACGTcount: A:0.28, C:0.10, G:0.36, T:0.26
Consensus pattern (37 bp):
TGATGATGTTGAAGTGTGCGAGTAGGGAGTGCACACA
Found at i:4931210 original size:2 final size:2
Alignment explanation
Indices: 4931203--4931252 Score: 100
Period size: 2 Copynumber: 25.0 Consensus size: 2
4931193 AATTGTTAAG
4931203 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
4931245 AT AT AT AT
1 AT AT AT AT
4931253 CTTAAGTAAT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4949682 original size:24 final size:24
Alignment explanation
Indices: 4949608--4949710 Score: 90
Period size: 24 Copynumber: 4.4 Consensus size: 24
4949598 TTATGATGTT
*
4949608 ACACGTCATGTACAAAAATCTGTA
1 ACACGCCATGTACAAAAATCTGTA
* * *
4949632 ACAAGCCATGGT----TAA-CGTGTT
1 ACACGCCAT-GTACAAAAATC-TGTA
4949653 ACACGCCATGTACAAAAATCTGTA
1 ACACGCCATGTACAAAAATCTGTA
* *
4949677 ACACGCCATGTACAAAAACCTGTG
1 ACACGCCATGTACAAAAATCTGTA
*
4949701 ACAAGCCATG
1 ACACGCCATG
4949711 GTTAGTGTGT
Statistics
Matches: 62, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
20 3 0.05
21 13 0.21
24 43 0.69
25 3 0.05
ACGTcount: A:0.38, C:0.24, G:0.17, T:0.21
Consensus pattern (24 bp):
ACACGCCATGTACAAAAATCTGTA
Found at i:4949733 original size:69 final size:69
Alignment explanation
Indices: 4949603--4949824 Score: 266
Period size: 69 Copynumber: 3.2 Consensus size: 69
4949593 TCACGTTATG
* * * * * * *
4949603 ATGTTACACGTCATGTACAAAAATCTGTAACAAGCCATGGTTAACGTGTTACACGCCATGTACAA
1 ATGTAACACGCCATGTACAAAAACCTGTGACAAGCCATGGTTAGCGTGTGACACACCATGTACAA
4949668 AAATC
66 AAA-C
* * *
4949673 -TGTAACACGCCATGTACAAAAACCTGTGACAAGCCATGGTTAGTGTGTGGCACACTATGTACAA
1 ATGTAACACGCCATGTACAAAAACCTGTGACAAGCCATGGTTAGCGTGTGACACACCATGTACAA
4949737 AAAC
66 AAAC
* * * * *
4949741 ATGTGACACGCCATGTACAAAAACCTGTGACAAGCCATGGTTAGCGTGAGACACGCCATGCACTA
1 ATGTAACACGCCATGTACAAAAACCTGTGACAAGCCATGGTTAGCGTGTGACACACCATGTACAA
4949806 AAAC
66 AAAC
* * *
4949810 CTGTGACAAGCCATG
1 ATGTAACACGCCATG
4949825 GTTAGCGTGT
Statistics
Matches: 131, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
68 1 0.01
69 130 0.99
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (69 bp):
ATGTAACACGCCATGTACAAAAACCTGTGACAAGCCATGGTTAGCGTGTGACACACCATGTACAA
AAAC
Found at i:4949756 original size:24 final size:24
Alignment explanation
Indices: 4949729--4949779 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
4949719 GTGGCACACT
*
4949729 ATGTACAAAAACATGTGACACGCC
1 ATGTACAAAAACATGTGACAAGCC
*
4949753 ATGTACAAAAACCTGTGACAAGCC
1 ATGTACAAAAACATGTGACAAGCC
4949777 ATG
1 ATG
4949780 GTTAGCGTGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.18
Consensus pattern (24 bp):
ATGTACAAAAACATGTGACAAGCC
Found at i:4949822 original size:24 final size:23
Alignment explanation
Indices: 4949736--4949824 Score: 65
Period size: 24 Copynumber: 3.9 Consensus size: 23
4949726 ACTATGTACA
* * *
4949736 AAAACATGTGACACGCCATGTACA
1 AAAACCTGTGACAAGCCATG-ACT
*
4949760 AAAACCTGTGACAAGCCATG-GT
1 AAAACCTGTGACAAGCCATGACT
* * * * *
4949782 -TAGCGTGAGACACGCCATGCACT
1 AAAACCTGTGACAAGCCATG-ACT
4949805 AAAACCTGTGACAAGCCATG
1 AAAACCTGTGACAAGCCATG
4949825 GTTAGCGTGT
Statistics
Matches: 47, Mismatches: 15, Indels: 6
0.69 0.22 0.09
Matches are distributed among these distances:
21 14 0.30
23 1 0.02
24 32 0.68
ACGTcount: A:0.36, C:0.26, G:0.21, T:0.17
Consensus pattern (23 bp):
AAAACCTGTGACAAGCCATGACT
Found at i:4949869 original size:45 final size:45
Alignment explanation
Indices: 4949745--4949853 Score: 173
Period size: 45 Copynumber: 2.4 Consensus size: 45
4949735 AAAAACATGT
4949745 GACACGCCATGTACAAAAACCTGTGACAAGCCATGGTTAGCGTGA
1 GACACGCCATGTACAAAAACCTGTGACAAGCCATGGTTAGCGTGA
* * *
4949790 GACACGCCATGCACTAAAACCTGTGACAAGCCATGGTTAGCGTGT
1 GACACGCCATGTACAAAAACCTGTGACAAGCCATGGTTAGCGTGA
* *
4949835 TACACGTCATGTACAAAAA
1 GACACGCCATGTACAAAAA
4949854 TATGTGATAT
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 57 1.00
ACGTcount: A:0.34, C:0.25, G:0.22, T:0.19
Consensus pattern (45 bp):
GACACGCCATGTACAAAAACCTGTGACAAGCCATGGTTAGCGTGA
Found at i:4949907 original size:21 final size:21
Alignment explanation
Indices: 4949882--4949959 Score: 59
Period size: 21 Copynumber: 3.6 Consensus size: 21
4949872 CGAAAATCTA
4949882 TGACAAGCCATGGTTAACTTG
1 TGACAAGCCATGGTTAACTTG
* * *
4949903 TGACACGTCAT-GTACAAAAGCTTG
1 TGACAAGCCATGGT---TAA-CTTG
* *
4949927 TGACAAGCCATGGTTAGCATG
1 TGACAAGCCATGGTTAACTTG
*
4949948 TGACACGCCATG
1 TGACAAGCCATG
4949960 TACAAAAGCC
Statistics
Matches: 43, Mismatches: 9, Indels: 10
0.69 0.15 0.16
Matches are distributed among these distances:
20 2 0.05
21 23 0.53
22 1 0.02
23 2 0.05
24 13 0.30
25 2 0.05
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (21 bp):
TGACAAGCCATGGTTAACTTG
Found at i:4949931 original size:45 final size:45
Alignment explanation
Indices: 4949865--4950073 Score: 258
Period size: 45 Copynumber: 4.6 Consensus size: 45
4949855 ATGTGATATA
* * * *
4949865 CCATGTACGAAAA-TCTATGACAAGCCATGGTTAACTTGTGACACG
1 CCATGTAC-AAAAGCCTGTGACAAGCCATGGTTAGCATGTGACACG
* *
4949910 TCATGTACAAAAGCTTGTGACAAGCCATGGTTAGCATGTGACACG
1 CCATGTACAAAAGCCTGTGACAAGCCATGGTTAGCATGTGACACG
* * * * *
4949955 CCATGTACAAAAGCCTATGACAAGCCATGGTTCGCCTGTTACATG
1 CCATGTACAAAAGCCTGTGACAAGCCATGGTTAGCATGTGACACG
* * *
4950000 CCATGTACAAAAGCTTGTGACAAGCCATAGTTAGCGTGTGACACG
1 CCATGTACAAAAGCCTGTGACAAGCCATGGTTAGCATGTGACACG
* *
4950045 TCATATACAAAAGCCTGTGACAAGCCATG
1 CCATGTACAAAAGCCTGTGACAAGCCATG
4950074 TACAAAAACC
Statistics
Matches: 139, Mismatches: 24, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
44 4 0.03
45 135 0.97
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (45 bp):
CCATGTACAAAAGCCTGTGACAAGCCATGGTTAGCATGTGACACG
Found at i:4949938 original size:24 final size:24
Alignment explanation
Indices: 4949901--4950088 Score: 112
Period size: 24 Copynumber: 8.2 Consensus size: 24
4949891 ATGGTTAACT
* * *
4949901 TGTGACACGTCATGTACAAAAGCT
1 TGTGACAAGCCATGTACAAAAGCC
* *
4949925 TGTGACAAGCCATGGT----TAGCA
1 TGTGACAAGCCAT-GTACAAAAGCC
*
4949946 TGTGACACGCCATGTACAAAAGCC
1 TGTGACAAGCCATGTACAAAAGCC
* *
4949970 TATGACAAGCCATGGTTC----GCC
1 TGTGACAAGCCAT-GTACAAAAGCC
* * *
4949991 TGTTACATGCCATGTACAAAAGCT
1 TGTGACAAGCCATGTACAAAAGCC
* *
4950015 TGTGACAAGCCATAGT----TAGCG
1 TGTGACAAGCCAT-GTACAAAAGCC
* * *
4950036 TGTGACACGTCATATACAAAAGCC
1 TGTGACAAGCCATGTACAAAAGCC
*
4950060 TGTGACAAGCCATGTACAAAAACC
1 TGTGACAAGCCATGTACAAAAGCC
4950084 TGTGA
1 TGTGA
4950089 AACTTCAAAT
Statistics
Matches: 121, Mismatches: 28, Indels: 30
0.68 0.16 0.17
Matches are distributed among these distances:
20 6 0.05
21 42 0.35
24 66 0.55
25 7 0.06
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (24 bp):
TGTGACAAGCCATGTACAAAAGCC
Found at i:4949975 original size:90 final size:90
Alignment explanation
Indices: 4949865--4950073 Score: 294
Period size: 90 Copynumber: 2.3 Consensus size: 90
4949855 ATGTGATATA
* * *
4949865 CCATGTACGAAAA-TCTATGACAAGCCATGGTTAACTTGTGACACGTCATGTACAAAAGCTTGTG
1 CCATGTAC-AAAAGCCTATGACAAGCCATGGTTAACCTGTGACACGCCATGTACAAAAGCTTGTG
*
4949929 ACAAGCCATGGTTAGCATGTGACACG
65 ACAAGCCATAGTTAGCATGTGACACG
** * *
4949955 CCATGTACAAAAGCCTATGACAAGCCATGGTTCGCCTGTTACATGCCATGTACAAAAGCTTGTGA
1 CCATGTACAAAAGCCTATGACAAGCCATGGTTAACCTGTGACACGCCATGTACAAAAGCTTGTGA
*
4950020 CAAGCCATAGTTAGCGTGTGACACG
66 CAAGCCATAGTTAGCATGTGACACG
* * *
4950045 TCATATACAAAAGCCTGTGACAAGCCATG
1 CCATGTACAAAAGCCTATGACAAGCCATG
4950074 TACAAAAACC
Statistics
Matches: 106, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
89 4 0.04
90 102 0.96
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.23
Consensus pattern (90 bp):
CCATGTACAAAAGCCTATGACAAGCCATGGTTAACCTGTGACACGCCATGTACAAAAGCTTGTGA
CAAGCCATAGTTAGCATGTGACACG
Found at i:4949983 original size:114 final size:113
Alignment explanation
Indices: 4949677--4949983 Score: 373
Period size: 114 Copynumber: 2.7 Consensus size: 113
4949667 AAAATCTGTA
* * * *
4949677 ACACGCCATGTACAAAAACCTGTGACAAGCCATGGTTAGTGTGTGGCACACTATGTACAAAAACA
1 ACACGCCATGTAC-AAAACCTGTGACAAGCCATGGTTAGCGTGTGACACGCCATGTACAAAAACA
* * *
4949742 TGTGACACGCCATGTACAAAAACCTGTGACAAGCCATGGTTAGCGTGAG
65 TGTGACAAGCCATGTACAAAAACCTATGACAAGCCATGGTTAACGTGAG
* * * *
4949791 ACACGCCATGCACTAAAACCTGTGACAAGCCATGGTTAGCGTGTTACACGTCATGTACAAAAATA
1 ACACGCCATGTAC-AAAACCTGTGACAAGCCATGGTTAGCGTGTGACACGCCATGTACAAAAACA
* * * * *
4949856 TGTGATATA-CCATGTACGAAAATCTATGACAAGCCATGGTTAACTTGTG
65 TGTGACA-AGCCATGTACAAAAACCTATGACAAGCCATGGTTAACGTGAG
* * * * *
4949905 ACACGTCATGTACAAAAGCTTGTGACAAGCCATGGTTAGCATGTGACACGCCATGTACAAAAGCC
1 ACACGCCATGTACAAAA-CCTGTGACAAGCCATGGTTAGCGTGTGACACGCCATGTACAAAAACA
*
4949970 TATGACAAGCCATG
65 TGTGACAAGCCATG
4949984 GTTCGCCTGT
Statistics
Matches: 162, Mismatches: 28, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
113 5 0.03
114 157 0.97
ACGTcount: A:0.34, C:0.22, G:0.21, T:0.22
Consensus pattern (113 bp):
ACACGCCATGTACAAAACCTGTGACAAGCCATGGTTAGCGTGTGACACGCCATGTACAAAAACAT
GTGACAAGCCATGTACAAAAACCTATGACAAGCCATGGTTAACGTGAG
Found at i:4950088 original size:69 final size:69
Alignment explanation
Indices: 4949790--4950088 Score: 195
Period size: 69 Copynumber: 4.4 Consensus size: 69
4949780 GTTAGCGTGA
* * * * **
4949790 GACACGCCATGCACTAAAACCTGTGACAAGCCATGGTTAGCGTGTTACACGTCATGTACAAAAAT
1 GACAAGCCATGTACAAAAACCTGTGACAAGCCATGGTTAGCGTGTGACACGTCATGTACAAAAGC
*
4949855 ATGT
66 CTGT
* * * * * *
4949859 GATATA-CCATGTACGAAAATCTATGACAAGCCATGGTTAACTTGTGACACGTCATGTACAAAAG
1 GACA-AGCCATGTACAAAAACCTGTGACAAGCCATGGTTAGCGTGTGACACGTCATGTACAAAAG
*
4949923 CTTGT
65 CCTGT
* * * * * * * * * *
4949928 GACAAGCCATGGT----TAGCATGTGACACGCCAT-GTACAAAAGCCTATGACAAGCCATGGTTC
1 GACAAGCCAT-GTACAAAAACCTGTGACAAGCCATGGT----TAGCGTGTGACACGTCAT-GTAC
4949988 ----GCCTGT
60 AAAAGCCTGT
* * * * * *
4949994 TACATGCCATGTACAAAAGCTTGTGACAAGCCATAGTTAGCGTGTGACACGTCATATACAAAAGC
1 GACAAGCCATGTACAAAAACCTGTGACAAGCCATGGTTAGCGTGTGACACGTCATGTACAAAAGC
4950059 CTGT
66 CTGT
4950063 GACAAGCCATGTACAAAAACCTGTGA
1 GACAAGCCATGTACAAAAACCTGTGA
4950089 AACTTCAAAT
Statistics
Matches: 170, Mismatches: 43, Indels: 34
0.69 0.17 0.14
Matches are distributed among these distances:
65 6 0.04
66 38 0.22
68 1 0.01
69 118 0.69
70 7 0.04
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.23
Consensus pattern (69 bp):
GACAAGCCATGTACAAAAACCTGTGACAAGCCATGGTTAGCGTGTGACACGTCATGTACAAAAGC
CTGT
Found at i:4950471 original size:23 final size:23
Alignment explanation
Indices: 4950431--4950475 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4950421 CTTGGTGTCT
*
4950431 TGAAAGCGTAAGAAAGAGAAATA
1 TGAAAACGTAAGAAAGAGAAATA
* *
4950454 TGAAAACGTGAGAGAGAGAAAT
1 TGAAAACGTAAGAAAGAGAAAT
4950476 CGGAAGCATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.04, G:0.29, T:0.13
Consensus pattern (23 bp):
TGAAAACGTAAGAAAGAGAAATA
Found at i:4951867 original size:22 final size:21
Alignment explanation
Indices: 4951836--4951883 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 21
4951826 AATTTAAAAA
*
4951836 TCATAAATATTA-TTAATATTT
1 TCATAAATA-TAGATAATATTT
4951857 TCATAGAATATAGATAATATTT
1 TCATA-AATATAGATAATATTT
4951879 TCATA
1 TCATA
4951884 TTAAGTAAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (21 bp):
TCATAAATATAGATAATATTT
Found at i:4965569 original size:103 final size:103
Alignment explanation
Indices: 4965390--4965595 Score: 403
Period size: 103 Copynumber: 2.0 Consensus size: 103
4965380 GTGATGTGCG
*
4965390 GGTGATGATTTCATTTACAATAAATTTTTAAATTTAGAATAAAAGTAGCAGCATAAAATAGAGTG
1 GGTGATGATTTCATTTACAATAAATTTTTAAATTTAGAATAAAAGTAGCAACATAAAATAGAGTG
4965455 CAAAAAAGTTAAGTTAGAAACATGCATGCTAAAGAGCA
66 CAAAAAAGTTAAGTTAGAAACATGCATGCTAAAGAGCA
4965493 GGTGATGATTTCATTTACAATAAATTTTTAAATTTAGAATAAAAGTAGCAACATAAAATAGAGTG
1 GGTGATGATTTCATTTACAATAAATTTTTAAATTTAGAATAAAAGTAGCAACATAAAATAGAGTG
4965558 CAAAAAAGTTAAGTTAGAAACATGCATGCTAAAGAGCA
66 CAAAAAAGTTAAGTTAGAAACATGCATGCTAAAGAGCA
4965596 ATATCTTAAA
Statistics
Matches: 102, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 102 1.00
ACGTcount: A:0.46, C:0.09, G:0.17, T:0.28
Consensus pattern (103 bp):
GGTGATGATTTCATTTACAATAAATTTTTAAATTTAGAATAAAAGTAGCAACATAAAATAGAGTG
CAAAAAAGTTAAGTTAGAAACATGCATGCTAAAGAGCA
Found at i:4967669 original size:4 final size:4
Alignment explanation
Indices: 4967660--4967741 Score: 65
Period size: 4 Copynumber: 20.5 Consensus size: 4
4967650 TGAAACAATG
* * * * * *
4967660 ATAT ATAT ATAC ATAC ATAC ATAC ATAA ATAT ATAT ATAT ATAT GTAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * * * *
4967708 ATGT ATAT GTAT ATAG ATAT ATAT TTAT GTAT AT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT AT
4967742 GTATGTATGT
Statistics
Matches: 64, Mismatches: 14, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
4 64 1.00
ACGTcount: A:0.45, C:0.05, G:0.06, T:0.44
Consensus pattern (4 bp):
ATAT
Found at i:4967720 original size:26 final size:26
Alignment explanation
Indices: 4967693--4967745 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
4967683 CATAAATATA
* *
4967693 TATATATATATGTATATGTATATGTA
1 TATAGATATATATATATGTATATGTA
*
4967719 TATAGATATATATTTATGTATATGTA
1 TATAGATATATATATATGTATATGTA
4967745 T
1 T
4967746 GTATGTATGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
TATAGATATATATATATGTATATGTA
Found at i:4967742 original size:6 final size:6
Alignment explanation
Indices: 4967688--4967745 Score: 62
Period size: 6 Copynumber: 9.3 Consensus size: 6
4967678 ACATACATAA
* * * *
4967688 ATATAT ATATAT ATATGT ATATGT ATATGT ATATAGAT ATATAT TTATGT
1 ATATGT ATATGT ATATGT ATATGT ATATGT ATAT-G-T ATATGT ATATGT
4967738 ATATGT AT
1 ATATGT AT
4967746 GTATGTATGT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
6 39 0.87
7 1 0.02
8 5 0.11
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (6 bp):
ATATGT
Found at i:4967746 original size:4 final size:4
Alignment explanation
Indices: 4967739--4967778 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
4967729 TATTTATGTA
* * *
4967739 TATG TATG TATG TATG TATG TCTG TATG CATG CATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
4967779 CATGGAGTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.23, C:0.07, G:0.25, T:0.45
Consensus pattern (4 bp):
TATG
Found at i:4969532 original size:20 final size:20
Alignment explanation
Indices: 4969507--4969552 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
4969497 CTTCTAAACC
4969507 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
* *
4969527 TCAAATTATACTTCAATAAG
1 TCAAATCATACTCCAATAAG
4969547 TCAAAT
1 TCAAAT
4969553 GGGGCCAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.46, C:0.20, G:0.04, T:0.30
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:4970746 original size:29 final size:29
Alignment explanation
Indices: 4970714--4970814 Score: 69
Period size: 29 Copynumber: 3.1 Consensus size: 29
4970704 AAATGTGATT
4970714 AAATGAAATGAGTTTTATAAATCATTTTG
1 AAATGAAATGAGTTTTATAAATCATTTTG
* * *
4970743 AAATTG-AATGATGATTTTAGAAATTGAGTAATTGG
1 AAA-TGAAATGA-G-TTTTATAAA-TCA-T--TTTG
4970778 AGACTNATGAAATGAGTTTTATAAATCATTTTG
1 A-A---ATGAAATGAGTTTTATAAATCATTTTG
4970811 AAAT
1 AAAT
4970815 TGAATGATGA
Statistics
Matches: 54, Mismatches: 6, Indels: 24
0.64 0.07 0.29
Matches are distributed among these distances:
29 10 0.19
30 3 0.06
31 8 0.15
32 3 0.06
33 5 0.09
35 5 0.09
36 3 0.06
37 8 0.15
38 3 0.06
39 6 0.11
ACGTcount: A:0.41, C:0.03, G:0.17, T:0.39
Consensus pattern (29 bp):
AAATGAAATGAGTTTTATAAATCATTTTG
Found at i:4970792 original size:68 final size:67
Alignment explanation
Indices: 4970716--4970844 Score: 249
Period size: 68 Copynumber: 1.9 Consensus size: 67
4970706 ATGTGATTAA
4970716 ATGAAATGAGTTTTATAAATCATTTTGAAATTGAATGATGATTTTAGAAATTGAGTAATTGGAGA
1 ATGAAATGAGTTTTATAAATCATTTTGAAATTGAATGATGATTTTAGAAATTGAGTAATTGGAGA
4970781 CT
66 CT
4970783 NATGAAATGAGTTTTATAAATCATTTTGAAATTGAATGATGATTTTAGAAATTGAGTAATTG
1 -ATGAAATGAGTTTTATAAATCATTTTGAAATTGAATGATGATTTTAGAAATTGAGTAATTG
4970845 CAGATTGTTT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
68 61 1.00
ACGTcount: A:0.39, C:0.02, G:0.19, T:0.40
Consensus pattern (67 bp):
ATGAAATGAGTTTTATAAATCATTTTGAAATTGAATGATGATTTTAGAAATTGAGTAATTGGAGA
CT
Found at i:4970829 original size:31 final size:32
Alignment explanation
Indices: 4970721--4970834 Score: 92
Period size: 31 Copynumber: 3.5 Consensus size: 32
4970711 ATTAAATGAA
*
4970721 ATGAGTTTTATAAATCATTTTGAAATTGAATG
1 ATGAGTTTTAGAAATCATTTTGAAATTGAATG
* * *
4970753 ATGA-TTTTAGAAATTGAGTAATTGGAGACTNATGAA--
1 ATGAGTTTTAGAAA-TCA-T--TTTGA-AAT--TGAATG
*
4970789 ATGAGTTTTATAAATCATTTTGAAATTGAATG
1 ATGAGTTTTAGAAATCATTTTGAAATTGAATG
4970821 ATGA-TTTTAGAAAT
1 ATGAGTTTTAGAAAT
4970835 TGAGTAATTG
Statistics
Matches: 63, Mismatches: 9, Indels: 21
0.68 0.10 0.23
Matches are distributed among these distances:
30 4 0.06
31 17 0.27
32 12 0.19
33 5 0.08
35 5 0.08
36 8 0.13
37 8 0.13
38 4 0.06
ACGTcount: A:0.39, C:0.03, G:0.18, T:0.40
Consensus pattern (32 bp):
ATGAGTTTTAGAAATCATTTTGAAATTGAATG
Found at i:4975837 original size:57 final size:57
Alignment explanation
Indices: 4975749--4975865 Score: 171
Period size: 57 Copynumber: 2.1 Consensus size: 57
4975739 TGCACGGTTG
* * * *
4975749 GGCTCCACTTATAGGGGACGACCCTCGTTACAAGCAGCCCTTTCCTCTTTCAGCGAT
1 GGCTCCACTCATAGAGGACAACCCTCGTTACAAGCAGCCCTTTCCTCCTTCAGCGAT
* * *
4975806 GGCTCCACTCGTAGAGGACAACCCTCGTTACAAGCAGCCCTTTTCTCCTTCAGCGGT
1 GGCTCCACTCATAGAGGACAACCCTCGTTACAAGCAGCCCTTTCCTCCTTCAGCGAT
4975863 GGC
1 GGC
4975866 AACAAACGGT
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.19, C:0.34, G:0.22, T:0.25
Consensus pattern (57 bp):
GGCTCCACTCATAGAGGACAACCCTCGTTACAAGCAGCCCTTTCCTCCTTCAGCGAT
Found at i:4985027 original size:22 final size:21
Alignment explanation
Indices: 4984983--4985032 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
4984973 TTTACCTTTG
*
4984983 ATTAATTTTTTTATTATTATT
1 ATTAATTTTTTAATTATTATT
*
4985004 ATATAATTTTATTAATT-TTTTT
1 AT-TAATTTT-TTAATTATTATT
4985026 ATTAATT
1 ATTAATT
4985033 AAAAAAGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 7 0.28
22 13 0.52
23 5 0.20
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
ATTAATTTTTTAATTATTATT
Found at i:4999468 original size:16 final size:18
Alignment explanation
Indices: 4999442--4999475 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
4999432 AATGTTAGAA
4999442 ATCAATCATGT-TGTTTT
1 ATCAATCATGTATGTTTT
4999459 ATCAAT-ATGTATGTTTT
1 ATCAATCATGTATGTTTT
4999476 TCATTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.26, C:0.09, G:0.12, T:0.53
Consensus pattern (18 bp):
ATCAATCATGTATGTTTT
Found at i:5001820 original size:11 final size:10
Alignment explanation
Indices: 5001798--5001838 Score: 55
Period size: 11 Copynumber: 3.9 Consensus size: 10
5001788 CTTTGTCTCA
*
5001798 TTTTTCCTTT
1 TTTTTTCTTT
5001808 TTTTGTTCTTT
1 TTTT-TTCTTT
5001819 TTTCTTTCTTT
1 TTT-TTTCTTT
5001830 TTTTTTCTT
1 TTTTTTCTT
5001839 CTTCCTTCTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 10 0.36
11 17 0.61
12 1 0.04
ACGTcount: A:0.00, C:0.15, G:0.02, T:0.83
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:5001822 original size:19 final size:20
Alignment explanation
Indices: 5001784--5001829 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
5001774 TCTTGGCTAA
5001784 CTTTCTTTGTCTCATTTTTC
1 CTTTCTTTGTCTCATTTTTC
* *
5001804 CTTTTTTTGT-TC-TTTTTT
1 CTTTCTTTGTCTCATTTTTC
5001822 CTTTCTTT
1 CTTTCTTT
5001830 TTTTTTCTTC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 12 0.52
19 2 0.09
20 9 0.39
ACGTcount: A:0.02, C:0.20, G:0.04, T:0.74
Consensus pattern (20 bp):
CTTTCTTTGTCTCATTTTTC
Found at i:5002870 original size:59 final size:59
Alignment explanation
Indices: 5002807--5003255 Score: 563
Period size: 59 Copynumber: 7.7 Consensus size: 59
5002797 AAGTTTGATT
* * * * * **
5002807 TAGGCGCGACCTATTTCAAAATAGGTTAGATTTAAAAATTGAAATTTTTAGACTTAATC
1 TAGGCTCGACCTATCTCACAACAGGTTCGATTTAAAAATTGAAATTCCTAGACTTAATC
** * * * *
5002866 TAGGCTCGATTTATCTAAGAACAAGTTCGATTTAAAAATTGAAATTCCTAGACATAATC
1 TAGGCTCGACCTATCTCACAACAGGTTCGATTTAAAAATTGAAATTCCTAGACTTAATC
* * * *
5002925 TAGGCTCGACCTATCTAAGAACAGGTTCAATTTAAAAATTGAAATTCCTAGACTTTATC
1 TAGGCTCGACCTATCTCACAACAGGTTCGATTTAAAAATTGAAATTCCTAGACTTAATC
* *
5002984 TAGGGTCGACCTATCTCACAACAGGTTCG--------ATTGAAATTTCTAGACTTAATC
1 TAGGCTCGACCTATCTCACAACAGGTTCGATTTAAAAATTGAAATTCCTAGACTTAATC
* * * *
5003035 TAAGCTCGACCTATCTCACAACAGGTTCTATTGAAAAATTGAAATTCCTAGACCTAATC
1 TAGGCTCGACCTATCTCACAACAGGTTCGATTTAAAAATTGAAATTCCTAGACTTAATC
** **
5003094 TAGGCTCGACCTATCTCACAATGGGTTCGATTTAAAAATTGAAATTTTTAGACTTAATC
1 TAGGCTCGACCTATCTCACAACAGGTTCGATTTAAAAATTGAAATTCCTAGACTTAATC
* *
5003153 TAGGCTCGACCTATCTCACAACAAGTTTGATTTAAAAATTGAAATTCCTAGACTTAATC
1 TAGGCTCGACCTATCTCACAACAGGTTCGATTTAAAAATTGAAATTCCTAGACTTAATC
* *
5003212 TAGGCTCCACCTATCTCACAACAGGTTCGATTTAAAGATTGAAA
1 TAGGCTCGACCTATCTCACAACAGGTTCGATTTAAAAATTGAAA
5003256 ATGAAAAACT
Statistics
Matches: 335, Mismatches: 47, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
51 46 0.14
59 289 0.86
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (59 bp):
TAGGCTCGACCTATCTCACAACAGGTTCGATTTAAAAATTGAAATTCCTAGACTTAATC
Found at i:5003096 original size:110 final size:110
Alignment explanation
Indices: 5002903--5003243 Score: 459
Period size: 110 Copynumber: 3.0 Consensus size: 110
5002893 CGATTTAAAA
* * * * *
5002903 ATTGAAATTCCTAGACATAATCTAGGCTCGACCTATCTAAGAACAGGTTCAATTTAAAAATTGAA
1 ATTGAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCTATTTAAAAATTGAA
* *
5002968 ATTCCTAGACTTTATCTAGGGTCGACCTATCTCACAACAGGTTCG
66 ATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCG
* *
5003013 ATTGAAATTTCTAGACTTAATCTAAGCTCGACCTATCTCACAACAGGTTCTATTGAAAAATTGAA
1 ATTGAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCTATTTAAAAATTGAA
* **
5003078 ATTCCTAGACCTAATCTAGGCTCGACCTATCTCACAATGGGTTCG
66 ATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCG
* *
5003123 ATTTAAAAATTGAAATTTTTAGACTTAATCTAGGCTCGACCTATCTCACAACAAGTT-TGATTTA
1 --------ATTGAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCT-ATTTA
*
5003187 AAAATTGAAATTCCTAGACTTAATCTAGGCTCCACCTATCTCACAACAGGTTCG
57 AAAATTGAAATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCG
5003241 ATT
1 ATT
5003244 TAAAGATTGA
Statistics
Matches: 202, Mismatches: 20, Indels: 18
0.84 0.08 0.08
Matches are distributed among these distances:
110 101 0.50
117 1 0.00
118 100 0.50
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.32
Consensus pattern (110 bp):
ATTGAAATTTCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCTATTTAAAAATTGAA
ATTCCTAGACTTAATCTAGGCTCGACCTATCTCACAACAGGTTCG
Found at i:5003125 original size:228 final size:228
Alignment explanation
Indices: 5002813--5003243 Score: 619
Period size: 228 Copynumber: 1.9 Consensus size: 228
5002803 GATTTAGGCG
* * * ** * **
5002813 CGACCTATTTCAAAATAGGTTAGATTTAAAAATTGAAATTTTTAGACTTAATCTAGGCTCGATTT
1 CGACCTATCTCAAAACAGGTTAGATTGAAAAATTGAAATTCCTAGACCTAATCTAGGCTCGACCT
*
5002878 ATCTAAGAACAAGTTCGATTTAAAAATTGAAATTCCTAGACATAATCTAGGCTCGACCTATCTAA
66 ATCTAACAACAAGTTCGATTTAAAAATTGAAATTCCTAGACATAATCTAGGCTCGACCTATCTAA
* * * * *
5002943 GAACAGGTTCAATTTAAAAATTGAAATTCCTAGACTTTATCTAGGGTCGACCTATCTCACAACAG
131 CAACAAGTTCAATTTAAAAATTGAAATTCCTAGACTTAATCTAGGCTCCACCTATCTCACAACAG
5003008 GTTCGATTGAAATTTCTAGACTTAATCTAAGCT
196 GTTCGATTGAAATTTCTAGACTTAATCTAAGCT
* **
5003041 CGACCTATCTCACAACAGGTTCTATTGAAAAATTGAAATTCCTAGACCTAATCTAGGCTCGACCT
1 CGACCTATCTCAAAACAGGTTAGATTGAAAAATTGAAATTCCTAGACCTAATCTAGGCTCGACCT
* *** ** * *
5003106 ATCTCACAATGGGTTCGATTTAAAAATTGAAATTTTTAGACTTAATCTAGGCTCGACCTATCTCA
66 ATCTAACAACAAGTTCGATTTAAAAATTGAAATTCCTAGACATAATCTAGGCTCGACCTATCTAA
**
5003171 CAACAAGTTTGATTTAAAAATTGAAATTCCTAGACTTAATCTAGGCTCCACCTATCTCACAACAG
131 CAACAAGTTCAATTTAAAAATTGAAATTCCTAGACTTAATCTAGGCTCCACCTATCTCACAACAG
5003236 GTTCGATT
196 GTTCGATT
5003244 TAAAGATTGA
Statistics
Matches: 176, Mismatches: 27, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
228 176 1.00
ACGTcount: A:0.35, C:0.19, G:0.14, T:0.32
Consensus pattern (228 bp):
CGACCTATCTCAAAACAGGTTAGATTGAAAAATTGAAATTCCTAGACCTAATCTAGGCTCGACCT
ATCTAACAACAAGTTCGATTTAAAAATTGAAATTCCTAGACATAATCTAGGCTCGACCTATCTAA
CAACAAGTTCAATTTAAAAATTGAAATTCCTAGACTTAATCTAGGCTCCACCTATCTCACAACAG
GTTCGATTGAAATTTCTAGACTTAATCTAAGCT
Found at i:5012147 original size:13 final size:13
Alignment explanation
Indices: 5012129--5012153 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5012119 TTCCAGAAAA
5012129 TTTATAAAATCAT
1 TTTATAAAATCAT
5012142 TTTATAAAATCA
1 TTTATAAAATCA
5012154 CAATTTCTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:5017945 original size:16 final size:16
Alignment explanation
Indices: 5017915--5017955 Score: 59
Period size: 15 Copynumber: 2.7 Consensus size: 16
5017905 TCTTAAAATA
*
5017915 ACTTCAAAA-CCAAAG
1 ACTTTAAAATCCAAAG
5017930 ACTTTAAAATCCAAAG
1 ACTTTAAAATCCAAAG
5017946 -CTTTAAAATC
1 ACTTTAAAATC
5017956 AAAATATATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 18 0.75
16 6 0.25
ACGTcount: A:0.49, C:0.22, G:0.05, T:0.24
Consensus pattern (16 bp):
ACTTTAAAATCCAAAG
Found at i:5020295 original size:20 final size:20
Alignment explanation
Indices: 5020278--5020315 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
5020268 CCTCAAATCT
5020278 TACTCCAATAAGTCAAATTA
1 TACTCCAATAAGTCAAATTA
5020298 TACTCCAATAAGTCAAAT
1 TACTCCAATAAGTCAAAT
5020316 GGGGCCAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.21, G:0.05, T:0.29
Consensus pattern (20 bp):
TACTCCAATAAGTCAAATTA
Found at i:5027074 original size:13 final size:13
Alignment explanation
Indices: 5027056--5027084 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
5027046 AGCTATTCAA
5027056 ATTAAATAAAAAT
1 ATTAAATAAAAAT
5027069 ATTAAATAAAAAT
1 ATTAAATAAAAAT
5027082 ATT
1 ATT
5027085 TCATTTTCTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
ATTAAATAAAAAT
Found at i:5070249 original size:170 final size:168
Alignment explanation
Indices: 5069927--5072621 Score: 2211
Period size: 170 Copynumber: 15.8 Consensus size: 168
5069917 TTTTAACTAA
* * *
5069927 TAGTTACTTGCTTTAAATGATTTTATAATCTTATAAATGATTTTAAGTTGAATTTCTTTTTCATT
1 TAGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATTGAA-TT-TTTTTCA-T
* * * * * * * ** *
5069992 TTTGGTTAAAACATATCATAATTTGATGTTTCCCTAGAGAAACGTGAGGTGAAAGCCATCCGTTG
63 TTTGTTTAAAATAGATCATAATTGGATGTTT-GCTTGAGAAACGTGAAGCAAAAGCCATCCATTG
*
5070057 ACAAGAAAAGTCCATTTATAGTCACTCATCCCTTTGAAAGCC
127 ACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCC
* *
5070099 TAATTACTAGCTTTAAATGGTTTTATCAA-CTTATAAATGATTTTAAATTGAATTCTTTTTCATT
1 TAGTTACTCGCTTTAAATGGTTTTAT-AATCTTATAAATGATTTTAAATTGAATT-TTTTTCATT
* * * * * * * *
5070163 TTGTTTTAAATGGATCATAATTTGATGGTTGCTTCAAGAAATGTGAAGCAAAAGCCATCTATTTA
64 TTGTTTAAAATAGATCATAATTGGATGTTTGCTT-GAGAAACGTGAAGCAAAAGCCATCCATTGA
* * * **
5070228 TAAGGAAAGTGCATTTATAGTCACTCATGCCTCCG-AAGCC
128 CAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCC
* * * *
5070268 TTA-TTACACGCTTTAAATGGATTTATAATCTTATAAATGATTTTAAGTTGAATTTGTTTTTATT
1 -TAGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATTGAATTT-TTTTCA-T
* * * * * *
5070332 TTTGATTAACACAGATCATAGTTGGATGTTTGCCTTG-GAAAGCATGCAGCAAAAGCCATCCATT
63 TTTGTTTAAAATAGATCATAATTGGATGTTTG-CTTGAGAAA-CGTGAAGCAAAAGCCATCCATT
* * * ** * *
5070396 GACAAAAAAAGTCCAATTATAGTCAGTCATGCCTTCAAAAACT
126 GACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCC
* * *
5070439 TAGTGACTCGCTTTAAATGGTTTTATAATCTTATAAATAATTTTAAGTTGAATTTTTTTTTCATT
1 TAGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATTGAA--TTTTTTTCATT
* * * * *
5070504 TT-TAGTTAAAACATATCATAATTGGATGTTTGCCTT-AGGAAACATGAAGCGAAAGCCATCGAT
64 TTGT--TTAAAATAGATCATAATTGGATGTTTG-CTTGA-GAAACGTGAAGCAAAAGCCATCCAT
* * *
5070567 TGACAAGAAAAGTTCATTTATAGTTACTCATGCTTTTGAAAGCC
125 TGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCC
* * * * *
5070611 TTA-TTACTCGTTTTAAGTGGTTTTATAAAT-TTATAAATAATTCTAAATTGATTTTTTTTCATT
1 -TAGTTACTCGCTTTAAATGGTTTTAT-AATCTTATAAATGATTTTAAATTGAATTTTTTTCATT
* * * * * * ** * * *
5070674 TTAGGTTGAAACAGATCAAAATTGGGTGTTTGCATCGAGAAACGTGAAGTGAAACCCATCTAGTG
64 TT-GTTTAAAATAGATCATAATTGGATGTTTGC-TTGAGAAACGTGAAGCAAAAGCCATCCATTG
* *
5070739 ACAAG-AAAGTCCATTTAGAGTCACTTATGCCTTTGAAAGCC
127 ACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCC
* * * * *
5070780 TTA-TTACTC-ATTT-TATGCTGTTTTATAATCTTATAAATGATTTTGAGTTGATTTGTTTTTCA
1 -TAGTTACTCGCTTTAAATG--GTTTTATAATCTTATAAATGATTTTAAATTGAATT-TTTTTCA
* * * * * *** * *
5070842 TTTT-TCATTAAAATAGTTCACAATTTGATGTTTGCCTTGGGAAACATG-AGTGGAAGTCGTCCA
62 TTTTGT--TTAAAATAGATCATAATTGGATGTTTG-CTTGAGAAACGTGAAGCAAAAGCCATCCA
* * *
5070905 TTGACAAGAAAAGTCCATGTATAGTCACTCATGCTTTTGATAGCC
124 TTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCC
* * * * *
5070950 TAGTTACTCACTTTAAATGGTTTTATAATCTTAAAAATGATTTTAAGTTGTATTGTTTTCATTTT
1 TAGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATTGAATTTTTTTCATTTT
* * * * * * * *
5071015 -TCATCAAAATATATCATTATTAGATGTTTTCCTTAAG-AACATGAAGCGAAAA-CCATCCATTT
66 GT--TTAAAATAGATCATAATTGGATG-TTTGCTTGAGAAACGTGAAGC-AAAAGCCATCCATTG
* * * **
5071077 ACAAAAAAAAGTCGATTTATAGTCACTCATACCTTCAAAAGCC
127 AC-AAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCC
* * ** ** * * * *
5071120 TTGTTACTCACTTTATGTCATTTCATAA-CTTTATAAATGATCTTGAATTCAATTTATTTTTCAT
1 TAGTTACTCGCTTTAAATGGTTTTATAATC-TTATAAATGATTTTAAATTGAA-TT-TTTTTCAT
* * * * * * * *
5071184 TTTTTGTTCAAACAGATCATATTTTGATGTTTGCATTGGGAAACGTGAAGCGAAAGCCATACATT
63 TTTGT-TTAAAATAGATCATAATTGGATGTTTGC-TTGAGAAACGTGAAGCAAAAGCCATCCATT
** * * *
5071249 GACAAGAAAAGTAAATTTTTAGTCACTTATACCTTTGAAAGCC
126 GACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCC
* * * * * *
5071292 CAGTTACTTGTTTTAAAAGGTTTTATAATCTTGTAAATGA-TTTAAATTGAACCTTTTTTCATTT
1 TAGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATTGAA-TTTTTTTCA-TT
* * * * *
5071356 TTGGTTAAAACT-TATCATAATTGGATGTTTACCTTGAGAAACATGAAGCAAAAGCGATCCATTG
64 TTGTTTAAAA-TAGATCATAATTGGATGTTT-GCTTGAGAAACGTGAAGCAAAAGCCATCCATTG
5071420 ACAAGAAAAGTCCATTTATATAGTCACTCATTG-CTTT-AAATGCC
127 ACAAGAAAAGTCCA-TT-TATAGTCACTCA-TGCCTTTGAAA-GCC
* * *
5071464 TAGTTACTCGCTTTTAGTGGTTTTATAA-CTTTATAAATGATTTTAAATAGAAGTTTTTATTCAT
1 TAGTTACTCGCTTTAAATGGTTTTATAATC-TTATAAATGATTTTAAATTGAA-TTTTT-TTCAT
* * * * * *
5071528 TTTGGTTAAAACAGATCATAATTAGATATTTGCCTTGAGAAACGTGAAGCAAAAGCTATCCATTA
63 TTTGTTTAAAATAGATCATAATTGGATGTTTG-CTTGAGAAACGTGAAGCAAAAGCCATCCATTG
* * * * *
5071593 ACAAGAAATGTCCACTTAAATTCACTCATGCCTTCGAAAGCC
127 ACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCC
* *
5071635 TAGTTACTCGAC-TTAAATGATTTTATAATCTTATAAATGATTTTACATTGAATATTTTTTCATT
1 TAGTTACTCG-CTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATTGAAT-TTTTTTCA--
* * * * ** * *
5071699 TTTTGGTTAAAACT-TATCATAATTGGATGTTTAGCTTTG-GAAAAGTGAGGTGAAATCCATTCA
62 TTTTGTTTAAAA-TAGATCATAATTGGATGTTT-GC-TTGAGAAACGTGAAGCAAAAGCCATCCA
* * * *
5071762 TTGATAAGAAAAGTCTATTTATAGTTACTCATGCCTTCGAAAGCC
124 TTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCC
* * *
5071807 TAGTTAGTCGTTTTAAATGGTTTTATAATCTTATAAATTATTTTAAGA-TGAATTTGTTTTCATT
1 TAGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAA-ATTGAATTT-TTTTCATT
* * * * *
5071871 TTAG-TTAAAATAGATCATAATTTGTTGTTTGCCTTGGGAAATGTG-AGCCGAAA-CTCATCCAT
64 TT-GTTTAAAATAGATCATAATTGGATGTTTG-CTTGAGAAACGTGAAG-CAAAAGC-CATCCAT
* *
5071933 TGACAAGAAAAGTCAATTTATAGTCACTCATCCCTTTGAAAGCC
125 TGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCC
* *
5071977 TAGTTACTCGCTTTAAATGGTTTTATAATCTTGTAAATGA-TTTAAATTGAACCTTTTTTCATTT
1 TAGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATTGAA-TTTTTTTCA-TT
* * ** * *
5072041 TTGGTTAAAACTA-ATCATAATTGGATGTTTACCTCAAGAAACATGAAGCAAAAACCATCCATTG
64 TTGTTTAAAA-TAGATCATAATTGGATGTTT-GCTTGAGAAACGTGAAGCAAAAGCCATCCATTG
* * **
5072105 ACAAGAAAAGTCTATTTATATAGTCACTCATGGCTTCAAAAGCC
127 ACAAGAAAAGTCCA-TT-TATAGTCACTCATGCCTTTGAAAGCC
* * * * *
5072149 TAATTACTAGGCTGT-AGTGGTTTTATAA-CTTTATAAATGATTTTAAATTAAATTTTTTTTCAT
1 TAGTTACT-CGCTTTAAATGGTTTTATAATC-TTATAAATGATTTTAAATTGAA-TTTTTTTCA-
* * * * * * ** *
5072212 TTTTGATTAAAACAGATGATAATCGGATATTTTCCTT-AGGAAATATGAAACAAAAGCCATCCAT
62 TTTTGTTTAAAATAGATCATAATTGGAT-GTTTGCTTGA-GAAACGTGAAGCAAAAGCCATCCAT
* *
5072276 TGACAAGAAAAGT-CATTTATAGTCACCCATGCCTTTGAAAGCG
125 TGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCC
* ** * *
5072319 TAATTACTCGCTTTAAATAATTTTATAATTTTATAAATGATTTTAAGTTGAATTTCTTTTTCATT
1 TAGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATTGAA-TT-TTTTTCATT
* * *** * * *
5072384 TTTTGTTAAAACAGATCATAATTTTTTGTTTTCCTTG-GAAAACATGAGGC-AAAGCCATCCATT
64 TTGT-TTAAAATAGATCATAATTGGATG-TTTGCTTGAG-AAACGTGAAGCAAAAGCCATCCATT
* *
5072447 GAGAAGAAAAGTCCATTTATAGTCACTTATGCCTTTGAAA--C
126 GACAAGAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCC
* *
5072488 ---TTACTCGCTTTATATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTGTTTTTCATTT
1 TAGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATTGAATT-TTTTTCA-TT
* ** * * **
5072550 TTGGTTAAAACCGATCATAATTGCATGTTTGCCTTGAGAAACATGAAGCAAAAGAGATCCATTGA
64 TTGTTTAAAATAGATCATAATTGGATGTTTG-CTTGAGAAACGTGAAGCAAAAGCCATCCATTGA
5072615 CAA-AAAA
128 CAAGAAAA
5072622 TGTCAAGCCC
Statistics
Matches: 2047, Mismatches: 372, Indels: 215
0.78 0.14 0.08
Matches are distributed among these distances:
164 3 0.00
165 46 0.02
166 65 0.03
167 2 0.00
168 16 0.01
169 220 0.11
170 742 0.36
171 236 0.12
172 503 0.25
173 207 0.10
174 7 0.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (168 bp):
TAGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATTGAATTTTTTTCATTTT
GTTTAAAATAGATCATAATTGGATGTTTGCTTGAGAAACGTGAAGCAAAAGCCATCCATTGACAA
GAAAAGTCCATTTATAGTCACTCATGCCTTTGAAAGCC
Found at i:5071385 original size:342 final size:342
Alignment explanation
Indices: 5069927--5072621 Score: 2522
Period size: 342 Copynumber: 7.9 Consensus size: 342
5069917 TTTTAACTAA
* * *
5069927 TAGTTACTTGCTTTAAATGATTTTATAATCTTATAAATGATTTTAAGTTGAATTTCTTTTTCATT
1 TAGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATTGAATTT-TTTTTCATT
* * * * * * *
5069992 TTTGGTTAAAACATATCATAATTTGATGTTT-CCCTAGAGAAACGTGAGGTGAAAGCCATCCGTT
65 TTTGGTTAAAACATATCATAATTGGATGTTTACCTTA-AGAAACATGAAGCGAAAACCATCCATT
* ** * *
5070056 GACAAGAAAAGTCCATTTATAGTCACTCATCCCTTTGAAAGCCTAATTACT-AGCTTTAAATGGT
129 GACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTAGTTACTCA-CTTTAAGTGGT
* **
5070120 TTTATCAAC-TTATAAATGATTTTAAATTGAATTCTTTTTCATTTTGTT-TT-AAATGGATCATA
193 TTTAT-AACTTTATAAATGATTTTAAATTGAATTTTTTTTCATTTT-TTGTTAAAACAGATCATA
* ** * * * * * * *
5070182 ATTTGATGGTTG-CTTCAAGAAATGTGAAGCAAAAGCCATCTATTTATAAGGAAAGTGCATTTAT
256 ATTTGATGTTTGCCTT-GGGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTAT
**
5070246 AGTCACTCATGCCTCCG-AAGCC
320 AGTCACTCATGCCTTTGAAAGCC
* * *
5070268 TTA-TTACACGCTTTAAATGGATTTATAATCTTATAAATGATTTTAAGTTGAATTTGTTTTT-AT
1 -TAGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATTGAATTT-TTTTTCAT
* * * * * * *
5070331 TTTTGATTAACACAGATCATAGTTGGATGTTTGCCTT-GGAAAGCATGCAGC-AAAAGCCATCCA
64 TTTTGGTTAAAACATATCATAATTGGATGTTTACCTTAAGAAA-CATGAAGCGAAAA-CCATCCA
* * * * * * * *
5070394 TTGACAAAAAAAGTCCAATTATAGTCAGTCATGCCTTCAAAAACTTAGTGACTCGCTTTAAATGG
127 TTGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTAGTTACTCACTTTAAGTGG
* * * *
5070459 TTTTATAA-TCTTATAAATAATTTTAAGTTGAATTTTTTTTTCATTTTTAGTTAAAACATATCAT
192 TTTTATAACT-TTATAAATGATTTTAAATTGAA-TTTTTTTTCATTTTTTGTTAAAACAGATCAT
* * * * *
5070523 AATTGGATGTTTGCCTTAGGAAACATGAAGCGAAAGCCATCGATTGACAAGAAAAGTTCATTTAT
255 AATTTGATGTTTGCCTTGGGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTAT
* *
5070588 AGTTACTCATGCTTTTGAAAGCC
320 AGTCACTCATGCCTTTGAAAGCC
* * * *
5070611 TTA-TTACTCGTTTTAAGTGGTTTTATAAAT-TTATAAATAATTCTAAATTG-ATTTTTTTTCAT
1 -TAGTTACTCGCTTTAAATGGTTTTAT-AATCTTATAAATGATTTTAAATTGAATTTTTTTTCAT
* * * * * * * ** * * * * *
5070673 TTTAGGTTGAAACAGATCAAAATTGGGTGTTTGCATCGAGAAACGTGAAGTGAAACCCATCTAGT
64 TTTTGGTTAAAACATATCATAATTGGATGTTTACCTTAAGAAACATGAAGCGAAAACCATCCATT
* * ** * *
5070738 GACAAG-AAAGTCCATTTAGAGTCACTTATGCCTTTGAAAGCCTTA-TTACTCATTTTATGCT-G
129 GACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCC-TAGTTACTCACTTTAAG-TGG
* * ** * * *
5070800 TTTTATAA-TCTTATAAATGATTTTGAGTTG-ATTTGTTTTTCATTTTTCATTAAAATAGTTCAC
192 TTTTATAACT-TTATAAATGATTTTAAATTGAATTT-TTTTTCATTTTTTGTTAAAACAGATCAT
* * * * * *
5070863 AATTTGATGTTTGCCTTGGGAAACATG-AGTGGAAGTCGTCCATTGACAAGAAAAGTCCATGTAT
255 AATTTGATGTTTGCCTTGGGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTAT
* *
5070927 AGTCACTCATGCTTTTGATAGCC
320 AGTCACTCATGCCTTTGAAAGCC
* * * * *
5070950 TAGTTACTCACTTTAAATGGTTTTATAATCTTAAAAATGATTTTAAGTTGTA-TTGTTTTCATTT
1 TAGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATTGAATTTTTTTTCATTT
** * * * * * *
5071014 TTCATCAAAATATATCATTATTAGATGTTTTCCTTAAG-AACATGAAGCGAAAACCATCCATTTA
66 TTGGTTAAAACATATCATAATTGGATGTTTACCTTAAGAAACATGAAGCGAAAACCATCCATTGA
* * * * * **
5071078 CAAAAAAAAGTCGATTTATAGTCACTCATACCTTCAAAAGCCTTGTTACTCACTTTATGTCATTT
131 C-AAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTAGTTACTCACTTTAAGTGGTTT
* * * * * *
5071143 CATAACTTTATAAATGATCTTGAATTCAATTTATTTTTCATTTTTTGTTCAAACAGATCATATTT
195 TATAACTTTATAAATGATTTTAAATTGAATTT-TTTTTCATTTTTTGTTAAAACAGATCATAATT
* * ** *
5071208 TGATGTTTGCATTGGGAAACGTGAAGCGAAAGCCATACATTGACAAGAAAAGTAAATTTTTAGTC
259 TGATGTTTGCCTTGGGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTC
* *
5071273 ACTTATACCTTTGAAAGCC
324 ACTCATGCCTTTGAAAGCC
* * * * * **
5071292 CAGTTACTTGTTTTAAAAGGTTTTATAATCTTGTAAATGA-TTTAAATTGAACCTTTTTTCATTT
1 TAGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATTGAATTTTTTTTCATTT
* * *
5071356 TTGGTTAAAACTTATCATAATTGGATGTTTACCTTGAGAAACATGAAGC-AAAAGCGATCCATTG
66 TTGGTTAAAACATATCATAATTGGATGTTTACCTTAAGAAACATGAAGCGAAAA-CCATCCATTG
* * * *
5071420 ACAAGAAAAGTCCATTTATATAGTCACTCATTG-CTTTAAATGCCTAGTTACTCGCTTTTAGTGG
130 ACAAGAAAAGTCCA-TT-TATAGTCACTCA-TGCCTTCAAAAGCCTAGTTACTCACTTTAAGTGG
* * *
5071484 TTTTATAACTTTATAAATGATTTTAAATAGAAGTTTTTATTCA-TTTTGGTTAAAACAGATCATA
192 TTTTATAACTTTATAAATGATTTTAAATTGAA-TTTTTTTTCATTTTTTGTTAAAACAGATCATA
* * * * * * * * *
5071548 ATTAGATATTTGCCTTGAGAAACGTGAAGCAAAAGCTATCCATTAACAAGAAATGTCCACTTAAA
256 ATTTGATGTTTGCCTTGGGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATA
* *
5071613 TTCACTCATGCCTTCGAAAGCC
321 GTCACTCATGCCTTTGAAAGCC
* * *
5071635 TAGTTACTCGAC-TTAAATGATTTTATAATCTTATAAATGATTTTACATTGAATATTTTTTCATT
1 TAGTTACTCG-CTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATTGAATTTTTTTTCA-T
* * ** * * * *
5071699 TTTTGGTTAAAACTTATCATAATTGGATGTTTAGCTTTGGAAA-AGTGAGGTGAAATCCATTCAT
64 TTTTGGTTAAAACATATCATAATTGGATGTTTACCTTAAGAAACA-TGAAGCGAAAACCATCCAT
* * * * * ** *
5071763 TGATAAGAAAAGTCTATTTATAGTTACTCATGCCTTCGAAAGCCTAGTTAGTCGTTTTAAATGGT
128 TGACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTAGTTACTCACTTTAAGTGGT
* * * *
5071828 TTTATAA-TCTTATAAATTATTTTAAGA-TGAATTTGTTTTCA-TTTTAGTTAAAATAGATCATA
193 TTTATAACT-TTATAAATGATTTTAA-ATTGAATTTTTTTTCATTTTTTGTTAAAACAGATCATA
* * *
5071890 ATTTGTTGTTTGCCTTGGGAAATGTG-AGCCGAAA-CTCATCCATTGACAAGAAAAGTCAATTTA
256 ATTTGATGTTTGCCTTGGGAAACGTGAAG-CGAAAGC-CATCCATTGACAAGAAAAGTCCATTTA
*
5071953 TAGTCACTCATCCCTTTGAAAGCC
319 TAGTCACTCATGCCTTTGAAAGCC
* **
5071977 TAGTTACTCGCTTTAAATGGTTTTATAATCTTGTAAATGA-TTTAAATTGAACCTTTTTTCATTT
1 TAGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATTGAATTTTTTTTCATTT
* *
5072041 TTGGTTAAAAC-TAATCATAATTGGATGTTTACCTCAAGAAACATGAAGCAAAAACCATCCATTG
66 TTGGTTAAAACAT-ATCATAATTGGATGTTTACCTTAAGAAACATGAAGCGAAAACCATCCATTG
* * * *
5072105 ACAAGAAAAGTCTATTTATATAGTCACTCATGGCTTCAAAAGCCTAATTACT-AGGCTGT-AGTG
130 ACAAGAAAAGTCCA-TT-TATAGTCACTCATGCCTTCAAAAGCCTAGTTACTCA--CTTTAAGTG
* *
5072168 GTTTTATAACTTTATAAATGATTTTAAATTAAATTTTTTTTCA-TTTTTGATTAAAACAGATGAT
191 GTTTTATAACTTTATAAATGATTTTAAATTGAATTTTTTTTCATTTTTTG-TTAAAACAGATCAT
** * * * ** * *
5072232 AATCGGATATTTTCCTTAGGAAATATGAAACAAAAGCCATCCATTGACAAGAAAAGT-CATTTAT
255 AATTTGATGTTTGCCTTGGGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTAT
* *
5072296 AGTCACCCATGCCTTTGAAAGCG
320 AGTCACTCATGCCTTTGAAAGCC
* ** * *
5072319 TAATTACTCGCTTTAAATAATTTTATAATTTTATAAATGATTTTAAGTTGAATTTCTTTTTCATT
1 TAGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATTGAATTT-TTTTTCATT
* * *** * * * *
5072384 TTTTGTTAAAACAGATCATAATTTTTTGTTTTCCTT-GGAAAACATGAGGC-AAAGCCATCCATT
65 TTTGGTTAAAACATATCATAATTGGATGTTTACCTTAAG-AAACATGAAGCGAAAACCATCCATT
* * ** *
5072447 GAGAAGAAAAGTCCATTTATAGTCACTTATGCCTTTGAAA--C---TTACTCGCTTTATA-TGGT
129 GACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTAGTTACTCACTTTA-AGTGGT
* * * *
5072506 TTTATAA-TCTTATAAATGATTTTAAGTTGAATTGTTTTTCATTTTTGGTTAAAACCGATCATAA
193 TTTATAACT-TTATAAATGATTTTAAATTGAATTTTTTTTCATTTTTTGTTAAAACAGATCATAA
* * * **
5072570 -TTGCATGTTTGCCTTGAGAAACATGAAGCAAAAGAGATCCATTGACAA-AAAA
257 TTTG-ATGTTTGCCTTGGGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAA
5072622 TGTCAAGCCC
Statistics
Matches: 1920, Mismatches: 366, Indels: 141
0.79 0.15 0.06
Matches are distributed among these distances:
335 9 0.00
336 95 0.05
337 6 0.00
338 26 0.01
339 139 0.07
340 302 0.16
341 247 0.13
342 529 0.28
343 353 0.18
344 142 0.07
345 69 0.04
346 3 0.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (342 bp):
TAGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAATTGAATTTTTTTTCATTT
TTGGTTAAAACATATCATAATTGGATGTTTACCTTAAGAAACATGAAGCGAAAACCATCCATTGA
CAAGAAAAGTCCATTTATAGTCACTCATGCCTTCAAAAGCCTAGTTACTCACTTTAAGTGGTTTT
ATAACTTTATAAATGATTTTAAATTGAATTTTTTTTCATTTTTTGTTAAAACAGATCATAATTTG
ATGTTTGCCTTGGGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTCCATTTATAGTCAC
TCATGCCTTTGAAAGCC
Found at i:5072309 original size:512 final size:509
Alignment explanation
Indices: 5069927--5072621 Score: 2660
Period size: 512 Copynumber: 5.3 Consensus size: 509
5069917 TTTTAACTAA
* *
5069927 TAGTTACTTGCTTTAAATGATTTTATAATCTTATAAATGATTTTAAGTTGAATTTCTTTTTCATT
1 TAGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAA-TT-TTTTTCATT
* * * * ** * *
5069992 TTTGGTTAAAACATATCATAATTTGATGTTT-CCCTAGAGAAACGTGAGGTGAAAGCCATCCGTT
64 TTTGGTTAAAACATATCATAATTGGATGTTTGCCTTA-AGAAACATGAAGCAAAAACCATCCATT
* * *
5070056 GACAAGAAAAGTCCATTTATAGTCACTCATCCCTTTGAAAGCCTAATTACTAGCTTTAAATGGTT
128 GACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTAATTACTAGCTTTAAGTGGTT
* * * **
5070121 TTATCAAC-TTATAAATGATTTTAAATTGAATTCTTTTTCA-TTTTGTTTTAAATGGATCATAAT
193 TTAT-AACTTTATAAATGATTTTAAATTGAATTTTTTTTCATTTTTGGTTAAAACAGATCATAAT
* ** * * * * * * * *
5070184 TTGATGGTTGCTTCAAGAAATGTGAAGCAAAAGCCATCTATTTATAAGGAAAGTGCATTTATAGT
257 TGGATTTTTGCTT-AGGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTACATTTATAGT
** * * *
5070249 CACTCATGCCTCCG-AAGCCTTATTACACGCTTTAAATGGATTTATAATCTTATAAATGATTTTA
321 CACTCATGCCTTTGAAAGCC-TATTACTCGTTTTAAATGGTTTTATAATCTTATAAATGATTTTA
* * * * *
5070313 AGTTGAATTTGTTTTTATTTTT-GATTAACACAGATCATAGTTGGATGTTTGCCTT-GGAAAGCA
385 AGTTGAATTTGTTTTCATTTTTAG-TTAAAATAGATCATAATTTGATGTTTGCCTTGGGAAA-CA
* * ** * *
5070376 TGCAGCAAAAGCCATCCATTGACAAAAAAAGTCCAA-TTATAGTCAGTCATGCCTTCAAAAACT
448 TG-AGCAAAAGCCATCCATTGACAAGAAAAGT-CAATTTATAGTCACTCATGCCTTTGAAAGCC
* *
5070439 TAGTGACTCGCTTTAAATGGTTTTATAATCTTATAAATAATTTTAAGTTGAATTTTTTTTTCATT
1 TAGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAA--TTTTTTTCATT
* * * * *
5070504 TTTAGTTAAAACATATCATAATTGGATGTTTGCCTTAGGAAACATGAAGCGAAAGCCATCGATTG
64 TTTGGTTAAAACATATCATAATTGGATGTTTGCCTTAAGAAACATGAAGCAAAAACCATCCATTG
* * * * * * *
5070569 ACAAGAAAAGTTCATTTATAGTTACTCATGCTTTTGAAAGCCTTATTACTCGTTTTAAGTGGTTT
129 ACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTAATTACTAGCTTTAAGTGGTTT
* * * * * *
5070634 TATAAATTTATAAATAATTCTAAATTG-ATTTTTTTTCATTTTAGGTTGAAACAGATCAAAATTG
194 TATAACTTTATAAATGATTTTAAATTGAATTTTTTTTCATTTTTGGTTAAAACAGATCATAATTG
* * * * * * * * * *
5070698 GGTGTTTGCATCGAGAAACGTGAAGTGAAACCCATCTAGTGACAAG-AAAGTCCATTTAGAGTCA
259 GATTTTTGCTTAG-GAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTACATTTATAGTCA
* * *
5070762 CTTATGCCTTTGAAAGCCTTATTACTCATTTT--ATGCTGTTTTATAATCTTATAAATGATTTTG
323 CTCATGCCTTTGAAAGCC-TATTACTCGTTTTAAATG--GTTTTATAATCTTATAAATGATTTTA
* *
5070825 AGTTG-ATTTGTTTTTCATTTTTCA-TTAAAATAGTTCACAATTTGATGTTTGCCTTGGGAAACA
385 AGTTGAATTTG-TTTTCATTTTT-AGTTAAAATAGATCATAATTTGATGTTTGCCTTGGGAAACA
*** * * * * * *
5070888 TGAGTGGAAGTCGTCCATTGACAAGAAAAGTCCATGTATAGTCACTCATGCTTTTGATAGCC
448 TGAGCAAAAGCCATCCATTGACAAGAAAAGTCAATTTATAGTCACTCATGCCTTTGAAAGCC
* * * *
5070950 TAGTTACTCACTTTAAATGGTTTTATAATCTTAAAAATGATTTTAAGTTGTATTGTTTTCATTTT
1 TAGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTCATTTT
** * * * * * * *
5071015 TCATCAAAATATATCATTATTAGATGTTTTCCTTAAG-AACATGAAGCGAAAACCATCCATTTAC
66 TGGTTAAAACATATCATAATTGGATGTTTGCCTTAAGAAACATGAAGCAAAAACCATCCATTGAC
* * * * ** * **
5071079 AAAAAAAAGTCGATTTATAGTCACTCATACCTTCAAAAGCCTTGTTACTCA-CTTTATGTCATTT
131 -AAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTAATTACT-AGCTTTAAGTGGTTT
* * * * * * *
5071143 CATAACTTTATAAATGATCTTGAATTCAATTTATTTTTCATTTTTTGTTCAAACAGATCATATTT
194 TATAACTTTATAAATGATTTTAAATTGAATTT-TTTTTCATTTTTGGTTAAAACAGATCATAATT
* * * * * *
5071208 TGATGTTTGCATTGGGAAACGTGAAGCGAAAGCCATACATTGACAAGAAAAGTAAATTTTTAGTC
258 GGATTTTTGC-TTAGGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTACATTTATAGTC
* * * * * *
5071273 ACTTATACCTTTGAAAGCCCAGTTACTTGTTTTAAAAGGTTTTATAATCTTGTAAATGA-TTTAA
322 ACTCATGCCTTTGAAAGCCTA-TTACTCGTTTTAAATGGTTTTATAATCTTATAAATGATTTTAA
* * * * * * *
5071337 ATTGAACCTT-TTTTCATTTTTGGTTAAAACT-TATCATAATTGGATGTTTACCTTGAGAAACAT
386 GTTGAA-TTTGTTTTCATTTTTAGTTAAAA-TAGATCATAATTTGATGTTTGCCTTGGGAAACAT
* *
5071400 GAAGCAAAAGCGATCCATTGACAAGAAAAGTCCATTTATATAGTCACTCATTG-CTTT-AAATGC
449 G-AGCAAAAGCCATCCATTGACAAGAAAAGT-CAATT-TATAGTCACTCA-TGCCTTTGAAA-GC
5071463 C
509 C
* * * *
5071464 TAGTTACTCGCTTTTAGTGGTTTTATAA-CTTTATAAATGATTTTAAATAGAAGTTTTTATTCA-
1 TAGTTACTCGCTTTAAATGGTTTTATAATC-TTATAAATGATTTTAAGTTGAA-TTTTT-TTCAT
* * * * * * *
5071527 TTTTGGTTAAAACAGATCATAATTAGATATTTGCCTTGAGAAACGTGAAGCAAAAGCTATCCATT
63 TTTTGGTTAAAACATATCATAATTGGATGTTTGCCTTAAGAAACATGAAGCAAAAACCATCCATT
* * * * * * * * *
5071592 AACAAGAAATGTCCACTTAAATTCACTCATGCCTTCGAAAGCCTAGTTACTCGAC-TTAAATGAT
128 GACAAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTAATTACTAG-CTTTAAGTGGT
* * **
5071656 TTTATAA-TCTTATAAATGATTTTACATTGAATATTTTTTCATTTTTTGGTTAAAACTTATCATA
192 TTTATAACT-TTATAAATGATTTTAAATTGAATTTTTTTTCA-TTTTTGGTTAAAACAGATCATA
* * * * * * * *
5071720 ATTGGATGTTTAGCTTTGGAAAAGTGAGGTGAAATCCATTCATTGATAAGAAAAGT-CTATTTAT
255 ATTGGAT-TTTTGCTTAGGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTAC-ATTTAT
* * * *
5071784 AGTTACTCATGCCTTCGAAAGCCTAGTTAGTCGTTTTAAATGGTTTTATAATCTTATAAATTATT
318 AGTCACTCATGCCTTTGAAAGCCTA-TTACTCGTTTTAAATGGTTTTATAATCTTATAAATGATT
* * *
5071849 TTAAGATGAATTTGTTTTCA-TTTTAGTTAAAATAGATCATAATTTGTTGTTTGCCTTGGGAAAT
382 TTAAGTTGAATTTGTTTTCATTTTTAGTTAAAATAGATCATAATTTGATGTTTGCCTTGGGAAAC
* * *
5071913 GTGAGCCGAAA-CTCATCCATTGACAAGAAAAGTCAATTTATAGTCACTCATCCCTTTGAAAGCC
447 ATGAG-CAAAAGC-CATCCATTGACAAGAAAAGTCAATTTATAGTCACTCATGCCTTTGAAAGCC
* * *
5071977 TAGTTACTCGCTTTAAATGGTTTTATAATCTTGTAAATGA-TTTAAATTGAACCTTTTTTCATTT
1 TAGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAA-TTTTTTTCATTT
* *
5072041 TTGGTTAAAAC-TAATCATAATTGGATGTTTACCTCAAGAAACATGAAGCAAAAACCATCCATTG
65 TTGGTTAAAACAT-ATCATAATTGGATGTTTGCCTTAAGAAACATGAAGCAAAAACCATCCATTG
* * * *
5072105 ACAAGAAAAGTCTATTTATATAGTCACTCATGGCTTCAAAAGCCTAATTACTAGGCTGT-AGTGG
129 ACAAGAAAAGTCCA-TT-TATAGTCACTCATGCCTTCGAAAGCCTAATTACTA-GCTTTAAGTGG
* * *
5072169 TTTTATAACTTTATAAATGATTTTAAATTAAATTTTTTTTCATTTTTGATTAAAACAGATGATAA
191 TTTTATAACTTTATAAATGATTTTAAATTGAATTTTTTTTCATTTTTGGTTAAAACAGATCATAA
* * ** * *
5072234 TCGGATATTTTCCTTAGGAAATATGAAACAAAAGCCATCCATTGACAAGAAAAGT-CATTTATAG
256 TTGGAT-TTTTGCTTAGGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTACATTTATAG
* * * ** *
5072298 TCACCCATGCCTTTGAAAGCGTAATTACTCGCTTTAAATAATTTTATAATTTTATAAATGATTTT
320 TCACTCATGCCTTTGAAAGCCT-ATTACTCGTTTTAAATGGTTTTATAATCTTATAAATGATTTT
* * * ** * *
5072363 AAGTTGAATTTCTTTTTCATTTTTTGTTAAAACAGATCATAATTTTTTGTTTTCCTTGGAAAACA
384 AAGTTGAATTT-GTTTTCATTTTTAGTTAAAATAGATCATAATTTGATGTTTGCCTTGGGAAACA
* * *
5072428 TGAGGC-AAAGCCATCCATTGAGAAGAAAAGTCCATTTATAGTCACTTATGCCTTTGAAA--C
448 TGA-GCAAAAGCCATCCATTGACAAGAAAAGTCAATTTATAGTCACTCATGCCTTTGAAAGCC
*
5072488 ---TTACTCGCTTTATATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTGTTTTTCATTT
1 TAGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATT-TTTTTCATTT
** * * *
5072550 TTGGTTAAAACCGATCATAATTGCATGTTTGCCTTGAGAAACATGAAGCAAAAGA-GATCCATTG
65 TTGGTTAAAACATATCATAATTGGATGTTTGCCTTAAGAAACATGAAGCAAAA-ACCATCCATTG
5072614 ACAA-AAAA
129 ACAAGAAAA
5072622 TGTCAAGCCC
Statistics
Matches: 1794, Mismatches: 324, Indels: 134
0.80 0.14 0.06
Matches are distributed among these distances:
508 64 0.04
509 188 0.10
510 10 0.01
511 250 0.14
512 561 0.31
513 189 0.11
514 196 0.11
515 290 0.16
516 46 0.03
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (509 bp):
TAGTTACTCGCTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGAATTTTTTTCATTTT
TGGTTAAAACATATCATAATTGGATGTTTGCCTTAAGAAACATGAAGCAAAAACCATCCATTGAC
AAGAAAAGTCCATTTATAGTCACTCATGCCTTCGAAAGCCTAATTACTAGCTTTAAGTGGTTTTA
TAACTTTATAAATGATTTTAAATTGAATTTTTTTTCATTTTTGGTTAAAACAGATCATAATTGGA
TTTTTGCTTAGGAAACGTGAAGCGAAAGCCATCCATTGACAAGAAAAGTACATTTATAGTCACTC
ATGCCTTTGAAAGCCTATTACTCGTTTTAAATGGTTTTATAATCTTATAAATGATTTTAAGTTGA
ATTTGTTTTCATTTTTAGTTAAAATAGATCATAATTTGATGTTTGCCTTGGGAAACATGAGCAAA
AGCCATCCATTGACAAGAAAAGTCAATTTATAGTCACTCATGCCTTTGAAAGCC
Found at i:5072976 original size:19 final size:19
Alignment explanation
Indices: 5072952--5072989 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
5072942 CCATTTGACT
5072952 TATTGGAGTATAATTTGAG
1 TATTGGAGTATAATTTGAG
*
5072971 TATTGGAGTATGATTTGAG
1 TATTGGAGTATAATTTGAG
5072990 GTTTAAAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATAATTTGAG
Found at i:5075000 original size:9 final size:9
Alignment explanation
Indices: 5074986--5075015 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
5074976 TTTACTCGCC
5074986 TTTAGATAG
1 TTTAGATAG
5074995 TTTAGATAG
1 TTTAGATAG
5075004 TTTAGATA-
1 TTTAGATAG
5075012 TTTA
1 TTTA
5075016 CTCACCACAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.19
9 17 0.81
ACGTcount: A:0.33, C:0.00, G:0.17, T:0.50
Consensus pattern (9 bp):
TTTAGATAG
Found at i:5077378 original size:15 final size:15
Alignment explanation
Indices: 5077358--5077403 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
5077348 TTCTTAAAAC
5077358 AACTTTAAAACCAAA
1 AACTTTAAAACCAAA
5077373 AACTTTAAAATCC-AA
1 AACTTTAAAA-CCAAA
*
5077388 AGCTTTAAAACCAAA
1 AACTTTAAAACCAAA
5077403 A
1 A
5077404 TCTCTGATCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
14 2 0.07
15 24 0.86
16 2 0.07
ACGTcount: A:0.57, C:0.20, G:0.02, T:0.22
Consensus pattern (15 bp):
AACTTTAAAACCAAA
Found at i:5077404 original size:21 final size:22
Alignment explanation
Indices: 5077379--5077424 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
5077369 CAAAAACTTT
5077379 AAAATC-CAAAGCTTTAAAACC
1 AAAATCTCAAAGCTTTAAAACC
** *
5077400 AAAATCTCTGATCTTTAAAACC
1 AAAATCTCAAAGCTTTAAAACC
5077422 AAA
1 AAA
5077425 TGCTCTGATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.50, C:0.22, G:0.04, T:0.24
Consensus pattern (22 bp):
AAAATCTCAAAGCTTTAAAACC
Found at i:5077425 original size:21 final size:23
Alignment explanation
Indices: 5077390--5077433 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
5077380 AAATCCAAAG
5077390 CTTTAAAACCAAAAT-CTCTGAT
1 CTTTAAAACCAAAATGCTCTGAT
5077412 CTTTAAAACC-AAATGCTCTGAT
1 CTTTAAAACCAAAATGCTCTGAT
5077434 ACCAATAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.39, C:0.23, G:0.07, T:0.32
Consensus pattern (23 bp):
CTTTAAAACCAAAATGCTCTGAT
Found at i:5080029 original size:19 final size:19
Alignment explanation
Indices: 5080005--5080042 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
5079995 ACTTCTAAAT
5080005 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
*
5080024 CTCAAATCATAGTCCAATA
1 CTCAAATCATACTCCAATA
5080043 AGTCAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.03, T:0.26
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:5082414 original size:19 final size:19
Alignment explanation
Indices: 5082390--5082427 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
5082380 CCATTTGACT
5082390 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
5082409 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
5082428 GTTTAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:5085620 original size:72 final size:72
Alignment explanation
Indices: 5085529--5085707 Score: 259
Period size: 78 Copynumber: 2.4 Consensus size: 72
5085519 CTTGGGAAGT
** * *
5085529 ATTTTGCATGATAAATATTGATAGTTACAAGGGAGGTATCGATACTTAAGGGTCAGAATGCCTTA
1 ATTTTGCATGGGAAGTATTGATACTTACAAGGGAGGTATCGATACTTAAGGGTCAGAATGCCTTA
5085594 AAAAGGC
66 AAAAGGC
5085601 ATTTTGCATGGGAAGTATTGATACTTACAAATACAAGGGAGGTATCGATACTTAAGGGTCAGAAT
1 ATTTTGCATGGGAAGTATTGATAC-T-----TACAAGGGAGGTATCGATACTTAAGGGTCAGAAT
*
5085666 GCCTTAGAAAGGC
60 GCCTTAAAAAGGC
5085679 ATTTTGCATGGGAAGTATTGATACTTACA
1 ATTTTGCATGGGAAGTATTGATACTTACA
5085708 TTAGAGATAT
Statistics
Matches: 96, Mismatches: 5, Indels: 12
0.85 0.04 0.11
Matches are distributed among these distances:
72 24 0.25
73 1 0.01
77 1 0.01
78 70 0.73
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.30
Consensus pattern (72 bp):
ATTTTGCATGGGAAGTATTGATACTTACAAGGGAGGTATCGATACTTAAGGGTCAGAATGCCTTA
AAAAGGC
Found at i:5085655 original size:78 final size:78
Alignment explanation
Indices: 5085554--5085707 Score: 299
Period size: 78 Copynumber: 2.0 Consensus size: 78
5085544 TATTGATAGT
5085554 TACAAGGGAGGTATCGATACTTAAGGGTCAGAATGCCTTAAAAAGGCATTTTGCATGGGAAGTAT
1 TACAAGGGAGGTATCGATACTTAAGGGTCAGAATGCCTTAAAAAGGCATTTTGCATGGGAAGTAT
5085619 TGATACTTACAAA
66 TGATACTTACAAA
*
5085632 TACAAGGGAGGTATCGATACTTAAGGGTCAGAATGCCTTAGAAAGGCATTTTGCATGGGAAGTAT
1 TACAAGGGAGGTATCGATACTTAAGGGTCAGAATGCCTTAAAAAGGCATTTTGCATGGGAAGTAT
5085697 TGATACTTACA
66 TGATACTTACA
5085708 TTAGAGATAT
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 75 1.00
ACGTcount: A:0.34, C:0.13, G:0.25, T:0.27
Consensus pattern (78 bp):
TACAAGGGAGGTATCGATACTTAAGGGTCAGAATGCCTTAAAAAGGCATTTTGCATGGGAAGTAT
TGATACTTACAAA
Found at i:5095861 original size:137 final size:138
Alignment explanation
Indices: 5095694--5095943 Score: 403
Period size: 137 Copynumber: 1.8 Consensus size: 138
5095684 ATTGCAAAAC
* **
5095694 TTGGTTAATTTGGTATGTATAACAGTTTCCTCTTAGCTATAGTATTTTTTGCTGGGTGTTTTTTA
1 TTGGTTAATTTGGTATGTATAACAGTTTCCTCTTAGCTACAGTATTTTTTGCTGGCCGTTTTTTA
*
5095759 AAATTAA-TTTATATTTTCATAATATTTTTCTTATAGGGAAAAAGTACCGAACATAACATTTGCA
66 AAATTAATTTTATATTTTCATAATATTTTTCTTATAAGGAAAAAGTACCGAACATAACATTTGCA
5095823 AAACCTGG
131 AAACCTGG
*** * *
5095831 TTGGTTAATTTGGTATGTATGTTATTTTCCTGTTAGCTACAGTATTTTTTGCTGGCCGTTTTTTA
1 TTGGTTAATTTGGTATGTATAACAGTTTCCTCTTAGCTACAGTATTTTTTGCTGGCCGTTTTTTA
*
5095896 AAATTAATTTTATATTTTCATGATATTTTTCTTATAAGGAAAAAGTAC
66 AAATTAATTTTATATTTTCATAATATTTTTCTTATAAGGAAAAAGTAC
5095944 AAAAAATCAT
Statistics
Matches: 102, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
137 64 0.63
138 38 0.37
ACGTcount: A:0.28, C:0.10, G:0.15, T:0.47
Consensus pattern (138 bp):
TTGGTTAATTTGGTATGTATAACAGTTTCCTCTTAGCTACAGTATTTTTTGCTGGCCGTTTTTTA
AAATTAATTTTATATTTTCATAATATTTTTCTTATAAGGAAAAAGTACCGAACATAACATTTGCA
AAACCTGG
Found at i:5100238 original size:68 final size:68
Alignment explanation
Indices: 5100126--5100264 Score: 260
Period size: 68 Copynumber: 2.0 Consensus size: 68
5100116 GGTGCCTACC
5100126 ATGGCTGTTTATGAGATGAACTACACATTTTCTACCATGATATGTTTGTATGTTTTTGGATGAAA
1 ATGGCTGTTTATGAGATGAACTACACATTTTCTACCATGATATGTTTGTATGTTTTTGGATGAAA
5100191 ACT
66 ACT
* *
5100194 ATGGCTGTTTATGGGATGAACTACACATTTTCTACCATGTTATGTTTGTATGTTTTTGGATGAAA
1 ATGGCTGTTTATGAGATGAACTACACATTTTCTACCATGATATGTTTGTATGTTTTTGGATGAAA
5100259 ACT
66 ACT
5100262 ATG
1 ATG
5100265 TACTGTTATT
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 69 1.00
ACGTcount: A:0.27, C:0.12, G:0.20, T:0.42
Consensus pattern (68 bp):
ATGGCTGTTTATGAGATGAACTACACATTTTCTACCATGATATGTTTGTATGTTTTTGGATGAAA
ACT
Found at i:5106017 original size:13 final size:13
Alignment explanation
Indices: 5105999--5106023 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
5105989 AGAGAAATTG
5105999 TGATTTTATAAAA
1 TGATTTTATAAAA
5106012 TGATTTTATAAA
1 TGATTTTATAAA
5106024 TTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Done.